![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 3 months ago
Last modified 3 months ago
#18174 closed defect
ChimeraX bug report submission — at Initial Version
| Reported by: | Owned by: | ||
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-15.5-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Last time you used ChimeraX it crashed.
This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. The Qt window toolkit crashed due to a display configuration change, typically when waking from sleep or when an external display is disconnected or connected. This has only been seen on Mac computers. We hope a newer version of Qt will fix it. We update ChimeraX daily builds whenever a new Qt is released. You can check here https://www.cgl.ucsf.edu/chimerax/docs/troubleshoot.html#macdisplay to see if it has been fixed in a newer ChimeraX.
Fatal Python error: Segmentation fault
Current thread 0x00000001f6bc1f00 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1217 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, chimerax.pdb_lib._load_libs, chimerax.surface._surface, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, psutil._psutil_osx, psutil._psutil_posix, chimerax.graphics._graphics, PIL._imagingmath, chimerax.segment._segment, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw, chimerax.atom_search.ast, chimerax.chem_group._chem_group, _pyKVFinder, chimerax.mlp._mlp, chimerax.coulombic._esp (total: 67)
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"procRole" : "Foreground",
"version" : 2,
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"modelCode" : "Mac16,11",
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"codeSigningMonitor" : 2,
"incident" : "475D8A60-87B2-4CE4-BBA7-B72BEAD72E63",
"pid" : 32065,
"translated" : false,
"cpuType" : "ARM-64",
"roots_installed" : 0,
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"procLaunch" : "2025-06-21 11:40:40.1972 -0400",
"procStartAbsTime" : 32880142488177,
"procExitAbsTime" : 71774005649593,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
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"parentProc" : "launchd",
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"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "2BF2C7CA-DE88-462B-A148-96695BEB4A6D",
"appleIntelligenceStatus" : {"state":"available"},
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"codeSigningAuxiliaryInfo" : 0,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRm+D\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkZDg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"bootSessionUUID" : "2912C302-1DBF-406E-934D-8C694610AFC4",
"sip" : "enabled",
"vmRegionInfo" : "0x2b4fb23494a8 is not in any region. Bytes after previous region: 47140255863977 Bytes before following region: 57931824065368\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n commpage (reserved) 1000000000-7000000000 [384.0G] ---\/--- SM=NUL reserved VM address space (unallocated)\n---> GAP OF 0x5f9000000000 BYTES\n MALLOC_NANO 600000000000-600020000000 [512.0M] rw-\/rwx SM=PRV ",
"exception" : {"codes":"0x0000000000000001, 0x00002b4fb23494a8","rawCodes":[1,47621292201128],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00002b4fb23494a8"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":32065},
"ktriageinfo" : "CL - (arg = 0x0) cluster_pagein past EOF\nAPFS - (arg = 0x3b12001600200040) cluster_pagein() failed\nVM - (arg = 0x1900000016) Filesystem pagein returned an error in vnode_pagein\nVM - (arg = 0x0) Page has error bit set\nCL - (arg = 0x0) cluster_pagein past EOF\n",
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===== Log before crash start =====
Startup Messages
---
warning | Registration file '/Users/clem/Library/Application Support/ChimeraX/registration' has expired
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1887_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1887_002_volume_map_sharp.mrc as #1, grid size
640,640,640, pixel 1.35, shown at level 0.111, step 4, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1907_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1907_002_volume_map_sharp.mrc as #2, grid size
640,640,640, pixel 1.35, shown at level 0.102, step 4, values float32
> volume #1 step 1
> volume #2 step 1
> surface dust #1 size 13.5
> surface dust #2 size 13.5
> volume #1 level 0.04559
> volume #1 level 0.05509
> volume #1 level 0.07
> volume #2 level 0.07
Color zone shortcut requires 1 displayed atomic model and 1 map, got 0 atomic
models, 2 maps.
> surface dust #1 size 13.5
> surface dust #2 size 13.5
> surface dust #1 size 13.5
> surface dust #2 size 13.5
> surface dust #1 size 13.5
> surface dust #2 size 13.5
> surface dust #1 size 13.5
> surface dust #2 size 13.5
> volume #1 level 0.09
> volume #2 level 0.09
> select add #2
2 models selected
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> view matrix models
> #2,0.8689,0.48693,-0.08893,-114.9,0.4846,-0.87344,-0.047656,618.76,-0.10088,-0.0016872,-0.9949,904.9
> view matrix models
> #2,0.87313,0.48696,-0.022539,-145.38,0.48618,-0.87324,-0.032677,611.53,-0.035595,0.017573,-0.99921,870.34
> view matrix models
> #2,0.94879,0.31429,-0.031821,-99.587,0.31394,-0.94931,-0.015756,711.19,-0.03516,0.0049594,-0.99937,875.66
> view matrix models
> #2,0.94962,0.31341,-0.0016287,-112.59,0.31341,-0.94961,0.0032983,703.32,-0.00051288,-0.0036426,-0.99999,864.71
> ui tool show "Fit in Map"
> fitmap #2 inMap #1
Fit map cryosparc_P1_J1907_002_volume_map_sharp.mrc in map
cryosparc_P1_J1887_002_volume_map_sharp.mrc using 3409335 points
correlation = 0.9655, correlation about mean = 0.681, overlap = 5.946e+04
steps = 52, shift = 1.89, angle = 0.265 degrees
Position of cryosparc_P1_J1907_002_volume_map_sharp.mrc (#2) relative to
cryosparc_P1_J1887_002_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.94871396 0.31613578 0.00000312 -114.08324092
0.31613577 -0.94871395 0.00007177 703.13445484
0.00002564 -0.00006710 -1.00000000 861.04540718
Axis -0.98709520 -0.16013454 -0.00000789
Axis point 0.00000000 360.83631836 430.51063307
Rotation angle (degrees) 179.99596981
Shift along axis 0.00811541
> fitmap #2 inMap #1
Fit map cryosparc_P1_J1907_002_volume_map_sharp.mrc in map
cryosparc_P1_J1887_002_volume_map_sharp.mrc using 3409335 points
correlation = 0.9655, correlation about mean = 0.681, overlap = 5.946e+04
steps = 44, shift = 0.0153, angle = 0.00412 degrees
Position of cryosparc_P1_J1907_002_volume_map_sharp.mrc (#2) relative to
cryosparc_P1_J1887_002_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.94871435 0.31613460 0.00000003 -114.07729970
0.31613460 -0.94871435 0.00000000 703.17950787
0.00000003 0.00000001 -1.00000000 861.02842044
Axis 0.98771899 0.15491141 -0.02033825
Axis point 0.00000000 360.53555470 429.33972022
Rotation angle (degrees) 179.99999988
Shift along axis -21.25759849
> fitmap #2 inMap #1
Fit map cryosparc_P1_J1907_002_volume_map_sharp.mrc in map
cryosparc_P1_J1887_002_volume_map_sharp.mrc using 3409335 points
correlation = 0.9655, correlation about mean = 0.681, overlap = 5.946e+04
steps = 60, shift = 0.0165, angle = 0.00103 degrees
Position of cryosparc_P1_J1907_002_volume_map_sharp.mrc (#2) relative to
cryosparc_P1_J1887_002_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.94871947 0.31611924 -0.00000002 -114.06844125
0.31611924 -0.94871947 -0.00000781 703.20747080
-0.00000249 0.00000740 -1.00000000 861.02524262
Axis 0.98709685 0.16012438 -0.00000614
Axis point 0.00000000 360.85400291 430.51363929
Rotation angle (degrees) 179.99955836
Shift along axis -0.00122738
> select subtract #2
Nothing selected
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1887_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1887_002_volume_map_sharp.mrc as #3, grid size
640,640,640, pixel 1.35, shown at level 0.111, step 4, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1907_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1907_002_volume_map_sharp.mrc as #4, grid size
640,640,640, pixel 1.35, shown at level 0.102, step 4, values float32
> hide #!3 models
> close #3-4
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Masks/collar_mask-1.mrc
Opened collar_mask-1.mrc as #3, grid size 356,356,106, pixel 2.75,2.75,2.75,
shown at level 0.0641, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Masks/collar_mask-2.mrc
Opened collar_mask-2.mrc as #4, grid size 356,356,106, pixel 2.75,2.75,2.75,
shown at level 0.0545, step 1, values float32
> select add #3
2 models selected
> select add #4
4 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #3,1,0,0,512.06,0,1,0,287.72,0,0,1,25.504,#4,1,0,0,512.06,0,1,0,287.72,0,0,1,25.504
> view matrix models
> #3,1,0,0,516,0,1,0,244.23,0,0,1,25.219,#4,1,0,0,516,0,1,0,244.23,0,0,1,25.219
> volume #3 level 0.03937
> volume #4 level 0.0319
> fitmap #3 inMap #1
Fit map collar_mask-1.mrc in map cryosparc_P1_J1887_002_volume_map_sharp.mrc
using 413637 points
correlation = 0.5734, correlation about mean = 0.07412, overlap = 1234
steps = 136, shift = 29.5, angle = 1.77 degrees
Position of collar_mask-1.mrc (#3) relative to
cryosparc_P1_J1887_002_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.99952203 -0.03090869 0.00060360 541.25732977
0.03090817 0.99952187 0.00085205 242.37647415
-0.00062964 -0.00083299 0.99999945 3.78167466
Axis -0.02724308 0.01993855 0.99942997
Axis point -7573.15909979 17623.19794212 0.00000000
Rotation angle (degrees) 1.77221529
Shift along axis -6.13336205
> fitmap #4 inMap #1
Fit map collar_mask-2.mrc in map cryosparc_P1_J1887_002_volume_map_sharp.mrc
using 492842 points
correlation = 0.5724, correlation about mean = 0.09506, overlap = 1196
steps = 140, shift = 29.2, angle = 1.76 degrees
Position of collar_mask-2.mrc (#4) relative to
cryosparc_P1_J1887_002_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.99952763 -0.03072152 0.00084482 541.10817581
0.03072022 0.99952688 0.00151417 242.09110672
-0.00089093 -0.00148750 0.99999850 4.29197497
Axis -0.04877639 0.02820544 0.99841140
Axis point -7621.84806887 17706.26118355 0.00000000
Rotation angle (degrees) 1.76325505
Shift along axis -15.27985929
> select subtract #3
2 models selected
> select subtract #4
Nothing selected
> volume #3 level 0.01287
> volume #4 level 0.01081
> hide #!4 models
> hide #!3 models
> hide #!2 models
> hide #!1 models
> show #!1 models
> volume #1 step 2
> volume #1 level 0.1223
> volume #3 level 0.04191
> ui mousemode right "rotate selected models"
> select add #3
2 models selected
> view matrix models
> #3,0.99239,-0.12003,-0.027399,570.37,0.11574,0.9854,-0.12488,311.47,0.041989,0.12076,0.99179,-11.262
> view matrix models
> #3,0.99457,-0.082144,-0.063961,580.07,0.072395,0.9872,-0.14214,314.48,0.074818,0.13674,0.98778,-9.0423
> view matrix models
> #3,0.99543,-0.081376,-0.049969,573.62,0.083444,0.99568,0.040799,230.35,0.046433,-0.044782,0.99792,18.073
> view matrix models
> #3,0.99875,-0.0085541,-0.049248,559.7,0.010832,0.99887,0.046184,219.66,0.048798,-0.04666,0.99772,18.771
> fitmap #3 inMap #1
Fit map collar_mask-1.mrc in map cryosparc_P1_J1887_002_volume_map_sharp.mrc
using 374896 points
correlation = 0.5789, correlation about mean = 0.06772, overlap = 1170
steps = 140, shift = 1.06, angle = 4.04 degrees
Position of collar_mask-1.mrc (#3) relative to
cryosparc_P1_J1887_002_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.99952436 -0.03083596 0.00044276 541.31462458
0.03083553 0.99952404 0.00092966 242.34489586
-0.00047121 -0.00091556 0.99999947 3.73120216
Axis -0.02990346 0.01481174 0.99944304
Axis point -7590.89467594 17663.14455798 0.00000000
Rotation angle (degrees) 1.76802320
Shift along axis -8.86850794
> volume #3 level 0.0319
> hide #!1 models
> show #!1 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.99952,-0.030836,0.00044276,562.01,0.030836,0.99952,0.00092966,237.94,-0.00047121,-0.00091556,1,2.1609
> hide #!3 models
> volume #1 level 0.1173
> volume #1 step 1
> volume #1 level 0.1073
> show #!3 models
> view matrix models
> #3,0.99952,-0.030836,0.00044276,544.66,0.030836,0.99952,0.00092966,245.49,-0.00047121,-0.00091556,1,2.5358
> fitmap #3 inMap #1
Fit map collar_mask-1.mrc in map cryosparc_P1_J1887_002_volume_map_sharp.mrc
using 543348 points
correlation = 0.5557, correlation about mean = 0.09128, overlap = 1409
steps = 72, shift = 4.93, angle = 0.0331 degrees
Position of collar_mask-1.mrc (#3) relative to
cryosparc_P1_J1887_002_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.99952305 -0.03087098 0.00080619 541.14431021
0.03086985 0.99952246 0.00137780 242.16836733
-0.00084834 -0.00135226 0.99999873 4.38536621
Axis -0.04415914 0.02676214 0.99866599
Axis point -7583.42885635 17627.73615206 0.00000000
Rotation angle (degrees) 1.77138955
Shift along axis -13.03600805
> volume #3 level 0.01251
> show #!4 models
> hide #!3 models
> show #!3 models
> hide #!3 models
> hide #!4 models
> show #!3 models
> volume sel showOutlineBox true
> hide #!1 models
> show #!1 models
> select subtract #3
Nothing selected
> volume #!1,3 showOutlineBox false
> volume #!1,3 showOutlineBox true
> volume resample #3 onGrid #1
Opened collar_mask-1.mrc resampled as #5, grid size 640,640,640, pixel 1.35,
shown at step 1, values float32
> volume #5 level 0.009129
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Masks/collar_mask-3_resampled.mrc
> models #5
> hide #!5 models
> volume #!1 showOutlineBox false
> show #!2 models
> hide #!1 models
> lighting soft
> show #!1 models
> lighting soft
> graphics silhouettes true
> graphics silhouettes false
> volume #2 level 0.1
> volume #1 level 0.1
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> volume #2 level 0.07844
> show #!1 models
> hide #!1 models
> hide #!2 models
> show #!1 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> select add #2
2 models selected
> view matrix models
> #2,0.94872,0.31612,-2.3367e-08,-113.76,0.31612,-0.94872,-7.8126e-06,703.01,-2.4919e-06,7.4046e-06,-1,858.46
> view matrix models
> #2,0.94872,0.31612,-2.3367e-08,-113.42,0.31612,-0.94872,-7.8126e-06,702.77,-2.4919e-06,7.4046e-06,-1,857.97
> hide #!2 models
> show #!2 models
> ui tool show "Side View"
> view matrix models
> #2,0.94872,0.31612,-2.3367e-08,-113.73,0.31612,-0.94872,-7.8126e-06,702.29,-2.4919e-06,7.4046e-06,-1,858.89
> fitmap #2 inMap #1
Fit map cryosparc_P1_J1907_002_volume_map_sharp.mrc in map
cryosparc_P1_J1887_002_volume_map_sharp.mrc using 4407872 points
correlation = 0.9611, correlation about mean = 0.7055, overlap = 6.621e+04
steps = 52, shift = 2.32, angle = 0.00411 degrees
Position of cryosparc_P1_J1907_002_volume_map_sharp.mrc (#2) relative to
cryosparc_P1_J1887_002_volume_map_sharp.mrc (#1) coordinates:
Matrix rotation and translation
0.94874041 0.31605637 0.00002080 -114.06143013
0.31605637 -0.94874041 -0.00002538 703.23886887
0.00001171 0.00003065 -1.00000000 860.98009194
Axis 0.98710199 0.16009270 0.00000674
Axis point 0.00000000 360.86274647 430.49549043
Rotation angle (degrees) 179.99837379
Shift along axis -0.00105673
> select add #2
3 models selected
> select subtract #2
Nothing selected
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> volume #2 level 0.1
> volume #1 level 0.06907
> volume #2 level 0.05478
> volume #2 level 0.07
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1917_004_volume_map_sharp.mrc
Opened cryosparc_P1_J1917_004_volume_map_sharp.mrc as #6, grid size
640,640,640, pixel 1.35, shown at level 0.145, step 4, values float32
> hide #!2 models
> hide #!1 models
> volume #6 step 1
> surface dust #6 size 13.5
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!3 models
> hide #!6 models
> ui tool show "Side View"
> ui tool show "Segment Map"
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
Segmenting collar_mask-1.mrc, density threshold 0.012510
Only showing 4 of 416 regions.
Showing 4 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 4 surfaces
> hide #7.1 models
> show #7.1 models
> hide #7.2 models
> show #7.2 models
> hide #!7 models
> show #!7 models
> hide #!3 models
> show #!2 models
> hide #!2 models
> show #!3 models
> close #7
Segmenting collar_mask-1.mrc, density threshold 0.012510
Only showing 50 of 416 regions.
Showing 50 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 50 surfaces
> hide #!3 models
> show #!3 models
> hide #!7 models
> show #!7 models
> show #!4 models
> show #!5 models
> hide #!5 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> close #7
Segmenting collar_mask-1.mrc, density threshold 0.012510
Showing 499 region surfaces
898 watershed regions, grouped to 499 regions
Showing collar_mask-1.seg - 499 regions, 499 surfaces
Segmenting collar_mask-1.mrc, density threshold 0.012510
Only showing 100 of 499 regions.
Showing 100 of 499 region surfaces
898 watershed regions, grouped to 499 regions
Showing collar_mask-1.seg - 499 regions, 100 surfaces
Segmenting collar_mask-1.mrc, density threshold 0.012510
Only showing 100 of 416 regions.
Showing 100 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 100 surfaces
> close #7
> close #1-6
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Masks/collar_mask-1.mrc
Opened collar_mask-1.mrc as #1, grid size 356,356,106, pixel 2.75,2.75,2.75,
shown at level 0.0641, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Masks/collar_mask-2.mrc
Opened collar_mask-2.mrc as #2, grid size 356,356,106, pixel 2.75,2.75,2.75,
shown at level 0.0545, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Masks/collar_mask-3_resampled.mrc
Opened collar_mask-3_resampled.mrc as #3, grid size 640,640,640, pixel 1.35,
shown at level 0.046, step 4, values float32
> hide #!3 models
> show #!3 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> show #!1 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1887_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1887_002_volume_map_sharp.mrc as #4, grid size
640,640,640, pixel 1.35, shown at level 0.111, step 4, values float32
> volume #4 step 1
> volume #3 step 1
> volume #1 level 0.01437
> surface dust #1 size 27.5
> surface dust #2 size 27.5
> surface dust #3 size 13.5
> surface dust #4 size 13.5
> hide #!2 models
> hide #!3 models
Segmenting collar_mask-1.mrc, density threshold 0.014367
Only showing 100 of 416 regions.
Showing 100 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 100 surfaces
> hide #!1 models
> show #!1 models
> ui tool show "Side View"
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> hide #!4 models
> ui mousemode right select
> select #5.31
1 model selected
> select add #5.60
2 models selected
Grouped 2 regions
> select add #5.52
2 models selected
> select add #5.26
3 models selected
> select clear
> select add #5.26
1 model selected
> select add #5.52
2 models selected
Grouped 2 regions
> select add #5.53
2 models selected
> select add #5.23
3 models selected
Grouped 3 regions
> select add #5.66
2 models selected
> select add #5.30
3 models selected
> select clear
> select #5.23
1 model selected
Ungrouped to 3 regions
> select clear
> select #5.26
1 model selected
> select add #5.52
2 models selected
Grouped 2 regions
> select clear
> select #5.66
1 model selected
> select add #5.30
2 models selected
Grouped 2 regions
> select #5.64
1 model selected
> select clear
> select #5.64
1 model selected
> select add #5.32
2 models selected
> select add #5.97
3 models selected
Grouped 3 regions
> select #5.59
1 model selected
> select add #5.25
2 models selected
> select add #5.100
3 models selected
Grouped 3 regions
> select clear
> select add #5.58
1 model selected
> select add #5.18
2 models selected
> select add #5.99
3 models selected
Grouped 3 regions
> select clear
> select #5.51
1 model selected
> select add #5.21
2 models selected
> select add #5.98
3 models selected
Grouped 3 regions
> select clear
> select #5.63
1 model selected
> select add #5.17
2 models selected
Grouped 2 regions
> select clear
> select add #5.48
1 model selected
> select add #5.27
2 models selected
Grouped 2 regions
> select clear
> select #5.57
1 model selected
> select add #5.22
2 models selected
Grouped 2 regions
> select clear
> select add #5.65
1 model selected
> select add #5.28
2 models selected
Grouped 2 regions
> select clear
> select add #5.54
1 model selected
> select add #5.24
2 models selected
Grouped 2 regions
> select clear
> select add #5.19
1 model selected
> select add #5.61
2 models selected
Grouped 2 regions
> select clear
> select add #5.56
1 model selected
> select add #5.29
2 models selected
Grouped 2 regions
> select clear
> select add #5.55
1 model selected
> select add #5.20
2 models selected
Grouped 2 regions
> select add #5.31
2 models selected
> select add #5.53
3 models selected
> select add #5.23
4 models selected
> select add #5.26
5 models selected
> select add #5.30
6 models selected
> select add #5.25
7 models selected
> select add #5.18
8 models selected
> select add #5.21
9 models selected
> select add #5.17
10 models selected
> select add #5.27
11 models selected
> select add #5.22
12 models selected
> select add #5.28
13 models selected
> select add #5.24
14 models selected
> select add #5.19
15 models selected
> select add #5.29
16 models selected
Grouped 16 regions
Grouped 64 regions
> select clear
> select #5.1
1 model selected
Saving 1 regions to mrc file...
Opened collar_mask-1_region_1.mrc as #6, grid size 195,196,76, pixel
2.75,2.75,2.75, shown at step 1, values float32
Wrote collar_mask-1_region_1.mrc
> select clear
> select add #5
3 models selected
> select subtract #5
Nothing selected
> hide #!5 models
> volume #6 level 0.01504
> volume #6 level 0.004558
> show #!1 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> close #6
> show #!5 models
Segmenting collar_mask-1.mrc, density threshold 0.014367
Only showing 150 of 416 regions.
Showing 150 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 150 surfaces
> hide #!1 models
> show #!1 models
Segmenting collar_mask-1.mrc, density threshold 0.014367
Only showing 200 of 416 regions.
Showing 200 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 200 surfaces
> select #1
2 models selected
> select clear
Segmenting collar_mask-1.mrc, density threshold 0.014367
Only showing 300 of 416 regions.
Showing 300 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 300 surfaces
> select #5.9
1 model selected
> select clear
Segmenting collar_mask-1.mrc, density threshold 0.014367
Only showing 250 of 416 regions.
Showing 250 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 250 surfaces
> select #1
2 models selected
> select clear
Segmenting collar_mask-1.mrc, density threshold 0.014367
Only showing 280 of 416 regions.
Showing 280 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 280 surfaces
Segmenting collar_mask-1.mrc, density threshold 0.014367
Only showing 280 of 416 regions.
Showing 280 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 280 surfaces
> select #1
2 models selected
> select clear
Segmenting collar_mask-1.mrc, density threshold 0.014367
Only showing 300 of 416 regions.
Showing 300 of 416 region surfaces
898 watershed regions, grouped to 416 regions
Showing collar_mask-1.seg - 416 regions, 300 surfaces
> select #1
2 models selected
> select clear
> hide #!1 models
Drag select of 1289, 278 of 11064 triangles, 1265, 7169 of 10984 triangles,
1292, 7514 of 11024 triangles, 1279, 7824 of 9304 triangles, 1339, 7920 of
9212 triangles, 1275, 1047, 4943 of 6564 triangles, 1095, 3043 of 6464
triangles, 88, 85 of 7052 triangles, 992, 800 of 6612 triangles, 930, 2296 of
5964 triangles
> select clear
> select #5.107
1 model selected
> select #5.105
1 model selected
> select #5.109
1 model selected
> select add #5.105
2 models selected
> select add #5.107
3 models selected
> select add #5.98
4 models selected
> select add #5.99
5 models selected
> select add #5.100
6 models selected
> select add #5.97
7 models selected
> select add #5.102
8 models selected
> select add #5.101
9 models selected
> select add #5.106
10 models selected
> select add #5.111
11 models selected
> select add #5.110
12 models selected
> select add #5.112
13 models selected
> select add #5.103
14 models selected
> open
> "/Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1898/cryosparc_P1_J1898_map_aligned_1
> (1).mrc"
Opened cryosparc_P1_J1898_map_aligned_1 (1).mrc as #6, grid size 144,144,144,
pixel 2.67, shown at level 0.36, step 1, values float32
> open
> "/Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1898/cryosparc_P1_J1898_map_aligned_0
> (1).mrc"
Opened cryosparc_P1_J1898_map_aligned_0 (1).mrc as #7, grid size 144,144,144,
pixel 2.67, shown at level 0.359, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1898/cryosparc_P1_J1898_map_aligned_0.mrc
Opened cryosparc_P1_J1898_map_aligned_0.mrc as #8, grid size 144,144,144,
pixel 2.67, shown at level 0.29, step 1, values float32
> hide #!5 models
> volume #6 level 0.2124
> volume #7 level 0.1789
> volume #8 level 0.159
> hide #!6 models
> show #!6 models
> hide #!7 models
> show #!7 models
> surface dust #6 size 26.7
> surface dust #7 size 26.7
> surface dust #8 size 26.7
> hide #!8 models
> show #!8 models
> hide #!8 models
> close #8
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1898/cryosparc_P1_J1888_class_11_00023_volume.mrc
Opened cryosparc_P1_J1888_class_11_00023_volume.mrc as #8, grid size
144,144,144, pixel 2.67, shown at level 0.42, step 1, values float32
> volume #8 level 0.2093
> surface dust #6 size 26.7
> surface dust #7 size 26.7
> surface dust #8 size 26.7
> surface dust #6 size 26.7
> surface dust #7 size 26.7
> surface dust #8 size 26.7
> view sel
> view
> view sel
> view
> view orient
> view sel
> view orient
> view
> view orient
> select #7
2 models selected
> select clear
> view orient
> select clear
> view orient
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> close #6-7
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1932/cryosparc_P1_J1932_map_aligned_0.mrc
Opened cryosparc_P1_J1932_map_aligned_0.mrc as #6, grid size 144,144,144,
pixel 2.67, shown at level 0.311, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1932/cryosparc_P1_J1932_map_aligned_1.mrc
Opened cryosparc_P1_J1932_map_aligned_1.mrc as #7, grid size 144,144,144,
pixel 2.67, shown at level 0.302, step 1, values float32
> volume #6 level 0.1715
> volume #7 level 0.1896
> hide #!8 models
> show #!8 models
> select clear
> close #6-8
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1937_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1937_002_volume_map_sharp.mrc as #6, grid size
640,640,640, pixel 1.35, shown at level 0.102, step 4, values float32
> volume #6 step 1
> surface dust #6 size 13.5
> volume #6 level 0.07042
> volume #6 level 0.07701
> volume #6 level 0.1
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Homo/DFlaB3/cryosparc_P1_J1933_006_volume_map_sharp.mrc
Opened cryosparc_P1_J1933_006_volume_map_sharp.mrc as #7, grid size
360,360,360, pixel 1.07, shown at level 0.122, step 2, values float32
> hide #!6 models
> volume #7 step 1
> volume #7 level 0.0855
> surface dust #7 size 10.7
> volume #7 level 0.0387
> show #!6 models
> hide #!7 models
> show #!5 models
> hide #!6 models
> select #5.106
1 model selected
> select add #5.111
2 models selected
> select add #5.110
3 models selected
> select add #5.112
4 models selected
> select add #5.103
5 models selected
> select add #5.104
6 models selected
> select add #5.108
7 models selected
> select add #5.107
8 models selected
> select add #5.105
9 models selected
> select add #5.109
10 models selected
> select add #5.98
11 models selected
> select add #5.99
12 models selected
> select add #5.100
13 models selected
> select add #5.97
14 models selected
> select add #5.101
15 models selected
> select add #5.102
16 models selected
Grouped 16 regions
> select #5.163
1 model selected
> select add #5.26
2 models selected
> select add #5.172
3 models selected
> select add #5.23
4 models selected
> select add #5.170
5 models selected
> select add #5.30
6 models selected
> select add #5.174
7 models selected
> select add #5.32
8 models selected
> select add #5.166
9 models selected
> select add #5.25
10 models selected
> select add #5.168
11 models selected
> select add #5.18
12 models selected
> select add #5.169
13 models selected
> select add #5.21
14 models selected
> select add #5.173
15 models selected
> select add #5.17
16 models selected
> select add #5.171
17 models selected
> select add #5.27
18 models selected
> select add #5.176
19 models selected
> select add #5.22
20 models selected
> select add #5.175
21 models selected
> select add #5.28
22 models selected
> select add #5.162
23 models selected
> select add #5.24
24 models selected
> select add #5.165
25 models selected
> select add #5.19
26 models selected
> select add #5.164
27 models selected
> select add #5.29
28 models selected
> select add #5.167
29 models selected
> select add #5.20
30 models selected
> select add #5.161
31 models selected
> select add #5.31
32 models selected
Grouped 32 regions
> select add #5.97
2 models selected
Grouped 2 regions
> select #5.144
1 model selected
> select #5.135
1 model selected
> select add #5.138
2 models selected
> select add #5.131
3 models selected
> select add #5.130
4 models selected
> select add #5.155
5 models selected
> select add #5.160
6 models selected
> select add #5.136
7 models selected
> select add #5.134
8 models selected
> select add #5.139
9 models selected
> select add #5.17
10 models selected
> select subtract #5.17
9 models selected
> select add #5.142
10 models selected
> select add #5.137
11 models selected
> select add #5.129
12 models selected
> select add #5.133
13 models selected
> select add #5.144
14 models selected
> select add #5.132
15 models selected
> select add #5.140
16 models selected
Grouped 16 regions
> select add #5.17
2 models selected
Grouped 2 regions
> select add #5.251
2 models selected
> select add #5.211
3 models selected
> select add #5.253
4 models selected
> select add #5.229
5 models selected
> select add #5.264
6 models selected
> select add #5.228
7 models selected
> select add #5.268
8 models selected
> select add #5.217
9 models selected
> select add #5.247
10 models selected
> select add #5.220
11 models selected
> select add #5.244
12 models selected
> select add #5.212
13 models selected
> select clear
> select add #5.298
1 model selected
> select add #5.208
2 models selected
> select add #5.66
3 models selected
> select add #5.300
4 models selected
> select add #5.197
5 models selected
> select add #5.64
6 models selected
> select add #5.194
7 models selected
> select add #5.59
8 models selected
> select add #5.297
9 models selected
> select add #5.58
10 models selected
> select add #5.209
11 models selected
> select add #5.51
12 models selected
> select add #5.200
13 models selected
> select add #5.63
14 models selected
> select add #5.226
15 models selected
> select add #5.284
16 models selected
> select add #5.48
17 models selected
> select add #5.193
18 models selected
> select add #5.57
19 models selected
> select add #5.295
20 models selected
> select add #5.204
21 models selected
> select add #5.65
22 models selected
> select add #5.293
23 models selected
> select add #5.206
24 models selected
> select add #5.278
25 models selected
> select add #5.215
26 models selected
> select add #5.54
27 models selected
> select subtract #5.215
26 models selected
> select add #5.224
27 models selected
> select add #5.61
28 models selected
> select add #5.280
29 models selected
> select add #5.214
30 models selected
> select add #5.56
31 models selected
> select add #5.294
32 models selected
> select add #5.207
33 models selected
> select add #5.55
34 models selected
> select add #5.296
35 models selected
> select add #5.205
36 models selected
> select add #5.60
37 models selected
> select add #5.299
38 models selected
> select add #5.195
39 models selected
> select add #5.53
40 models selected
> select add #5.196
41 models selected
> select add #5.52
42 models selected
> select add #5.282
43 models selected
> select add #5.227
44 models selected
Grouped 44 regions
Drag select of 1303, 1323, 1321, 1267, 1324, 1326, 1277, 1320, 1328, 1331,
1322, 1297, 1300, 1332, 1329, 1330, 1150, 1156, 1151, 1145, 1135, 1066, 1033,
1168, 1200, 1144, 610, 1157, 1222, 1146, 1177, 1314, 1153, 1293, 1123, 1302,
1125, 1187, 1226, 1204, 1036, 1179, 1172, 1219, 1327, 1078, 1164, 1039, 1031,
1176, 1075, 1062, 1304, 1067, 1178, 1082, 1018, 1296, 1020, 1191, 1161, 1007,
1131, 1025, 1313, 1294, 1298, 1312, 1338, 1315, 1299, 1318, 1134, 1325, 1261,
1214, 1124, 1122, 1290, 1336, 226, 284, 296, 293, 304, 277, 326, 228, 232,
315, 325, 239, 301, 324, 309, 321, 1181, 1074, 1159, 1154, 1155, 1190, 1188,
1165, 1163, 1152, 1162, 1063, 1171, 1166, 1185, 1175, 1238, 1240, 1241, 1239,
1242, 794, 800, 798, 796, 791, 799, 808, 792, 787, 795, 814, 785, 786, 788,
805, 804, 1174, 1217, 1213, 1143, 1141, 1167, 1229, 715, 1148, 127, 143, 1195,
1128, 1127, 761, 115, 718, 755, 141, 1220, 130, 716, 142, 719, 116, 1126, 721,
135, 767, 766, 1140, 120, 144, 724, 722, 1129, 125, 730, 725, 113, 727, 137,
714, 122, 1142, 132, 114, 729, 829, 823, 828, 822, 833, 819, 825, 820, 831,
827, 821
Grouped 192 regions
> select clear
Showing 119 region surfaces
> select #5.27
1 model selected
> select #5.85
1 model selected
> select clear
> select #5.17
1 model selected
> select add #5.102
2 models selected
> select clear
> select add #5.102
1 model selected
> select add #5.93
2 models selected
> select add #5.85
3 models selected
> select add #5.98
4 models selected
> select add #5.95
5 models selected
> select add #5.99
6 models selected
> select add #5.86
7 models selected
> select add #5.103
8 models selected
> select add #5.89
9 models selected
> select add #5.101
10 models selected
> select add #5.97
11 models selected
> select add #5.87
12 models selected
> select add #5.96
13 models selected
> select add #5.92
14 models selected
> select add #5.94
15 models selected
> select add #5.100
16 models selected
Grouped 16 regions
> select add #5.17
2 models selected
Grouped 2 regions
> select clear
> select #5.5
1 model selected
> select add #5.118
2 models selected
> select add #5.105
3 models selected
> select add #5.114
4 models selected
> select add #5.108
5 models selected
> select add #5.2
6 models selected
> select add #5.18
7 models selected
> select add #5.113
8 models selected
> select add #5.109
9 models selected
> select add #5.116
10 models selected
> select add #5.119
11 models selected
> select add #5.106
12 models selected
> select add #5.112
13 models selected
> select add #5.104
14 models selected
> select add #5.107
15 models selected
> select add #5.4
16 models selected
> select add #5.110
17 models selected
> select add #5.111
18 models selected
> select add #5.3
19 models selected
> select add #5.117
20 models selected
> select add #5.115
21 models selected
Grouped 21 regions
> select add #5.17
2 models selected
Grouped 2 regions
> select clear
> select #5.1
1 model selected
> select #5.2
1 model selected
> select clear
> select #5.2
1 model selected
Drag select of 1349, 707, 709, 705, 949, 711, 713, 571, 573, 569, 572, 710,
570, 712, 557, 562, 728, 560, 1048, 726, 723, 1065, 975, 565, 568, 731, 947,
558, 708, 1035, 561, 1044, 559, 564, 1073, 566, 1010, 934, 1013, 1006, 733,
1091, 1052, 1019, 1083, 567, 1045, 1028, 732, 652, 647, 639, 653, 641, 649,
640, 645, 650, 643, 642, 654, 644, 648, 651, 646, 666, 664, 663, 670, 661,
665, 660, 672, 668, 667, 659, 662, 673, 669, 658, 671
Grouped 81 regions
> select clear
Showing 2 region surfaces
> select #5.1
1 model selected
> select #5.1
1 model selected
Saving 1 regions to mrc file...
Opened collar_mask-1_region_2.mrc as #8, grid size 255,254,76, pixel
2.75,2.75,2.75, shown at step 1, values float32
Wrote collar_mask-1_region_2.mrc
> select clear
> show #!1 models
> select add #5
3 models selected
> select subtract #5
Nothing selected
> hide #!5 models
> hide #!8 models
> show #!8 models
> hide #!1 models
> volume #8 level 0.01545
> show #!4 models
> select add #8
2 models selected
> ui mousemode right "translate selected models"
> view matrix models #8,1,0,0,537.72,0,1,0,245.53,0,0,1,-68.051
> view matrix models #8,1,0,0,530.77,0,1,0,254.35,0,0,1,-17.826
> view matrix models #8,1,0,0,536.36,0,1,0,248.62,0,0,1,-17.519
> ui mousemode right "rotate selected models"
> view matrix models
> #8,0.99834,-0.05719,0.0070076,543.84,0.057217,0.99835,-0.0037198,256.65,-0.0067834,0.0041145,0.99997,-18.999
> show #!7 models
> hide #!7 models
> show #!6 models
> hide #!4 models
> ui mousemode right "translate selected models"
> view matrix models
> #8,0.99834,-0.05719,0.0070076,661.52,0.057217,0.99835,-0.0037198,126.93,-0.0067834,0.0041145,0.99997,-186.56
> volume #6 level 0.067
> volume #6 level 0.07525
> show #!4 models
> hide #!4 models
> ui mousemode right "rotate selected models"
> view matrix models
> #8,0.59233,0.80449,0.044069,437.24,0.80338,-0.58558,-0.10808,556.08,-0.061145,0.099423,-0.99316,718.17
> view matrix models
> #8,0.62123,0.78298,-0.031937,479.78,0.78342,-0.6196,0.048405,487.58,0.018112,-0.05509,-0.99832,758.36
> view matrix models
> #8,0.63262,0.77303,-0.047128,489.95,0.7737,-0.62813,0.082755,472.19,0.03437,-0.088815,-0.99545,765.17
> ui mousemode right "translate selected models"
> view matrix models
> #8,0.63262,0.77303,-0.047128,361.97,0.7737,-0.62813,0.082755,597.38,0.03437,-0.088815,-0.99545,769.34
> view matrix models
> #8,0.63262,0.77303,-0.047128,373.77,0.7737,-0.62813,0.082755,589.84,0.03437,-0.088815,-0.99545,767.77
> ui mousemode right "rotate selected models"
> view matrix models
> #8,0.63103,0.76845,-0.10624,402.02,0.77489,-0.63086,0.039546,610.62,-0.036634,-0.10728,-0.99355,762.99
> view matrix models
> #8,0.63192,0.76987,-0.089281,393.94,0.77486,-0.62999,0.051961,604.67,-0.016243,-0.10202,-0.99465,764.63
> ui mousemode right "translate selected models"
> view matrix models
> #8,0.63192,0.76987,-0.089281,390.47,0.77486,-0.62999,0.051961,597.55,-0.016243,-0.10202,-0.99465,903.14
> ui mousemode right "rotate selected models"
> view matrix models
> #8,0.76182,0.63691,-0.11822,442.93,0.64597,-0.76057,0.065154,602.87,-0.048421,-0.12601,-0.99085,902.59
> view matrix models
> #8,0.78539,0.61878,0.016457,386.11,0.61897,-0.78482,-0.030564,649.28,-0.0059969,0.034191,-0.9994,880.41
> view matrix models
> #8,0.78486,0.61855,0.03731,376.38,0.61955,-0.78448,-0.027195,647.71,0.012447,0.04446,-0.99893,880.16
> ui mousemode right "translate selected models"
> view matrix models
> #8,0.78486,0.61855,0.03731,368.84,0.61955,-0.78448,-0.027195,659.97,0.012447,0.04446,-0.99893,880.3
> view matrix models
> #8,0.78486,0.61855,0.03731,369.65,0.61955,-0.78448,-0.027195,666.55,0.012447,0.04446,-0.99893,871.53
> view matrix models
> #8,0.78486,0.61855,0.03731,385.85,0.61955,-0.78448,-0.027195,671.81,0.012447,0.04446,-0.99893,858.52
> view matrix models
> #8,0.78486,0.61855,0.03731,367.86,0.61955,-0.78448,-0.027195,661.99,0.012447,0.04446,-0.99893,856.67
> view matrix models
> #8,0.78486,0.61855,0.03731,374.5,0.61955,-0.78448,-0.027195,655.7,0.012447,0.04446,-0.99893,857.66
> fitmap #8 inMap #6
Fit map collar_mask-1_region_2.mrc in map
cryosparc_P1_J1937_002_volume_map_sharp.mrc using 632567 points
correlation = 0.598, correlation about mean = 0.1753, overlap = 1455
steps = 104, shift = 6.6, angle = 2.72 degrees
Position of collar_mask-1_region_2.mrc (#8) relative to
cryosparc_P1_J1937_002_volume_map_sharp.mrc (#6) coordinates:
Matrix rotation and translation
0.77501874 0.63193627 0.00158058 390.49696164
0.63193740 -0.77501938 -0.00029777 645.41663024
0.00103680 0.00122960 -0.99999871 860.04844668
Axis 0.94207671 0.33539678 0.00069464
Axis point 0.00000000 253.01130862 429.97689580
Rotation angle (degrees) 179.95355373
Shift along axis 584.94616953
> volume #8 level 0.01466
> volume #6 level 0.08167
> ui mousemode right select
> select clear
> show #!5 models
> hide #!6 models
> show #!6 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> volume #!6,8 showOutlineBox true
> volume resample #8 onGrid #6
Opened collar_mask-1_region_2.mrc resampled as #9, grid size 640,640,640,
pixel 1.35, shown at step 1, values float32
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Masks/collar_mask-1_region_2_resampled.mrc
> models #9
> hide #!9 models
> hide #!6 models
> show #!7 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1887_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1887_002_volume_map_sharp.mrc as #10, grid size
640,640,640, pixel 1.35, shown at level 0.111, step 4, values float32
> hide #!7 models
> volume #10 step 1
> surface dust #10 size 13.5
> show #!6 models
> volume #!6,10 showOutlineBox false
> select add #10
2 models selected
> select subtract #10
Nothing selected
> open
> "/Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1907_002_volume_map_sharp
> (1).mrc"
Opened cryosparc_P1_J1907_002_volume_map_sharp (1).mrc as #11, grid size
640,640,640, pixel 1.35, shown at level 0.102, step 4, values float32
> hide #!10 models
> hide #!6 models
> volume #11 step 1
> surface dust #11 size 13.5
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Homo/cryosparc_P1_J1883_004_volume_map_sharp.mrc
Opened cryosparc_P1_J1883_004_volume_map_sharp.mrc as #12, grid size
640,640,640, pixel 1.35, shown at level 0.0904, step 4, values float32
> volume #12 step 1
> surface dust #11 size 13.5
> surface dust #12 size 13.5
> hide #!11 models
> volume #12 level 0.04293
> hide #!12 models
> show #!11 models
> volume #11 level 0.06698
> hide #!11 models
> show #!6 models
> volume #6 level 0.07
> surface dust #6 size 13.5
> view
> view orient
> preset "overall look" "publication 1 (silhouettes)"
Using preset: Overall Look / Publication 1 (Silhouettes)
> set bgColor #ffffff00
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
lighting depthCue f
> volume #6 level 0.08
> volume #6 level 0.05
> volume #6 level 0.07
> view orient
> volume #6 level 0.048
> volume #6 level 0.09
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1959/cryosparc_P1_J1947_class_00_00028_volume.mrc
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc as #13, grid size
144,144,144, pixel 2.67, shown at level 0.435, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1959/cryosparc_P1_J1959_map_aligned_0.mrc
Opened cryosparc_P1_J1959_map_aligned_0.mrc as #14, grid size 144,144,144,
pixel 2.67, shown at level 0.32, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1959/cryosparc_P1_J1959_map_aligned_1.mrc
Opened cryosparc_P1_J1959_map_aligned_1.mrc as #15, grid size 144,144,144,
pixel 2.67, shown at level 0.348, step 1, values float32
> hide #!4 models
> hide #!6 models
> volume #13 level 0.2444
> surface dust #13 size 26.7
> surface dust #14 size 26.7
> surface dust #15 size 26.7
> hide #!13 models
> volume #14 level 0.1748
> volume #15 level 0.2021
> hide #!14 models
> hide #!15 models
> show #!14 models
> show #!13 models
> volume #14 level 0.2124
> hide #!14 models
> show #!14 models
> hide #!14 models
> volume #13 level 0.2465
> hide #!13 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1950_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1950_002_volume_map_sharp.mrc as #16, grid size
640,640,640, pixel 1.35, shown at level 0.114, step 4, values float32
> volume #16 step 1
> volume #16 level 0.1096
> surface dust #16 size 13.5
> hide #!16 models
> show #!14 models
> hide #!14 models
> show #!13 models
> show #!14 models
> hide #!13 models
> hide #!14 models
> show #!13 models
> show #!14 models
> hide #!14 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Homo/DFlaB3/cryosparc_P1_J1960_005_volume_map_sharp.mrc
Opened cryosparc_P1_J1960_005_volume_map_sharp.mrc as #17, grid size
360,360,360, pixel 1.07, shown at level 0.122, step 2, values float32
> hide #!13 models
> volume #17 step 1
> volume #17 level 0.06249
> volume #17 level 0.06897
> surface dust #17 size 10.7
> hide #!17 models
> show #!13 models
> show #!14 models
> hide #!13 models
> show #!13 models
> hide #!14 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Homo/DFlaB3/cryosparc_P1_J1965_003_volume_map_sharp.mrc
Opened cryosparc_P1_J1965_003_volume_map_sharp.mrc as #18, grid size
360,360,360, pixel 1.07, shown at level 0.115, step 2, values float32
> hide #!13 models
> volume #18 step 1
> volume #18 level 0.05956
> surface dust #18 size 10.7
> hide #!18 models
> show #!13 models
> lighting soft
> graphics silhouettes false
> graphics silhouettes true
> color #13 #cfcdeaff models
> color #13 #eae2eaff models
> color #13 #eae0eaff models
> color #13 #cacacc80 models
> color #13 #f5f1ef41 models
> color #13 #e2ddda7f models
> color #13 #bbbbbbff models
> color #13 #cbcbcbff models
> color #13 #b5b5b5ff models
> color #13 #b7b7b7ff models
> volume #13 level 0.25
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J1964_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1964_002_volume_map_sharp.mrc as #19, grid size
360,360,360, pixel 1.07, shown at level 0.118, step 2, values float32
> hide #!13 models
> volume #19 step 1
> surface dust #19 size 10.7
> volume #19 level 0.0814
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Homo/DFlaB3/cryosparc_P1_J1963_004_volume_map_sharp.mrc
Opened cryosparc_P1_J1963_004_volume_map_sharp.mrc as #20, grid size
360,360,360, pixel 1.07, shown at level 0.121, step 2, values float32
> hide #!19 models
> volume #20 step 1
> surface dust #20 size 10.7
> volume #20 level 0.07804
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/Asy_part_mask-1.mrc
Opened Asy_part_mask-1.mrc as #21, grid size 360,360,360, pixel 1.07, shown at
level 0.0316, step 2, values float32
> hide #!21 models
> show #!21 models
> select add #21
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #21,0.99244,0.12263,0.0043353,-14.607,-0.1226,0.99243,-0.0071257,25.444,-0.0051763,0.0065404,0.99997,0.17284
> view matrix models
> #21,0.99193,0.12677,-0.00043293,-14.093,-0.12677,0.99191,-0.0065154,26.177,-0.00039655,0.0065177,0.99998,-0.72818
> ui mousemode right "translate selected models"
> view matrix models
> #21,0.99193,0.12677,-0.00043293,-46.222,-0.12677,0.99191,-0.0065154,45.086,-0.00039655,0.0065177,0.99998,-3.9881
> ui mousemode right "rotate selected models"
> view matrix models
> #21,0.9906,0.13661,0.0068441,-48.611,-0.13653,0.99057,-0.011884,48.14,-0.008403,0.010838,0.99991,-2.9992
> view matrix models
> #21,0.98999,0.14093,-0.0076276,-46.203,-0.1411,0.98944,-0.033036,53.273,0.0028914,0.033782,0.99943,-7.876
> view matrix models
> #21,0.97752,0.19771,-0.073246,-38.067,-0.19932,0.97982,-0.015293,61.976,0.068744,0.029549,0.9972,-19.333
> view matrix models
> #21,0.90438,0.41872,-0.082258,-49.885,-0.42501,0.9011,-0.085904,128.07,0.038153,0.11265,0.9929,-23.017
> ui mousemode right "translate selected models"
> view matrix models
> #21,0.90438,0.41872,-0.082258,-59.21,-0.42501,0.9011,-0.085904,110.27,0.038153,0.11265,0.9929,-22.013
> view matrix models
> #21,0.90438,0.41872,-0.082258,-59.652,-0.42501,0.9011,-0.085904,117.82,0.038153,0.11265,0.9929,-18.491
> view matrix models
> #21,0.90438,0.41872,-0.082258,-54.383,-0.42501,0.9011,-0.085904,113.72,0.038153,0.11265,0.9929,-19.829
> ui mousemode right "rotate selected models"
> view matrix models
> #21,0.90802,0.41382,-0.065241,-57.785,-0.41089,0.91008,0.05403,82.615,0.081734,-0.022253,0.99641,-12.025
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7668, correlation about mean = 0.1429, overlap = 115.7
steps = 208, shift = 29.1, angle = 9.01 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
0.84929549 0.52786331 0.00758317 -73.00642619
-0.52789881 0.84929911 0.00372414 129.30427575
-0.00447454 -0.00716605 0.99996431 -26.41813540
Axis -0.01031378 0.01141951 -0.99988160
Axis point 189.55024450 191.86230259 0.00000000
Rotation angle (degrees) 31.86661488
Shift along axis 28.64457190
> view matrix models
> #21,0.84903,0.51456,0.11989,-93.245,-0.5266,0.84259,0.11284,108.58,-0.042956,-0.15893,0.98635,2.2896
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7668, correlation about mean = 0.1429, overlap = 115.7
steps = 120, shift = 0.324, angle = 9.02 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
0.84932345 0.52781875 0.00755290 -72.99800381
-0.52785413 0.84932679 0.00374458 129.28825803
-0.00443842 -0.00716719 0.99996447 -26.42539809
Axis -0.01033510 0.01135759 -0.99988209
Axis point 189.55231813 191.85192476 0.00000000
Rotation angle (degrees) 31.86358698
Shift along axis 28.64512697
> ui mousemode right "translate selected models"
> view matrix models
> #21,0.84932,0.52782,0.0075529,-71.566,-0.52785,0.84933,0.0037446,130.57,-0.0044384,-0.0071672,0.99996,-0.46812
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7668, correlation about mean = 0.1434, overlap = 115.7
steps = 160, shift = 26, angle = 0.0148 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
0.84940651 0.52768394 0.00763099 -73.02964530
-0.52771902 0.84941155 0.00355654 129.26355767
-0.00460512 -0.00704796 0.99996456 -26.40546452
Axis -0.01004664 0.01159242 -0.99988233
Axis point 189.54576517 191.94505266 0.00000000
Rotation angle (degrees) 31.85447336
Shift along axis 28.63453717
> view matrix models
> #21,0.84941,0.52768,0.007631,-73.825,-0.52772,0.84941,0.0035565,134.49,-0.0046051,-0.007048,0.99996,15.289
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7667, correlation about mean = 0.1363, overlap = 116.1
steps = 108, shift = 9.86, angle = 2.07 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
0.83393294 0.55185507 -0.00344027 -73.42512486
-0.55183692 0.83380934 -0.01542726 140.98480837
-0.00564508 0.01476377 0.99987507 21.84412012
Axis 0.02734430 0.00199692 -0.99962408
Axis point 197.91376172 191.44119035 0.00000000
Rotation angle (degrees) 33.50800785
Shift along axis -23.56213186
> view matrix models
> #21,0.83393,0.55186,-0.0034403,-73.796,-0.55184,0.83381,-0.015427,139.08,-0.0056451,0.014764,0.99988,0.25459
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7667, correlation about mean = 0.1362, overlap = 116.1
steps = 156, shift = 21.7, angle = 0.00172 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
0.83392547 0.55186645 -0.00342602 -73.42616340
-0.55184822 0.83380228 -0.01540449 140.98815502
-0.00564459 0.01473684 0.99987547 21.84734278
Axis 0.02729876 0.00200934 -0.99962530
Axis point 197.91311478 191.44364478 0.00000000
Rotation angle (degrees) 33.50874061
Shift along axis -23.56030639
> select subtract #21
Nothing selected
> select add #21
2 models selected
> view matrix models
> #21,0.83393,0.55187,-0.003426,-71.795,-0.55185,0.8338,-0.015404,138.04,-0.0056446,0.014737,0.99988,20.543
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7667, correlation about mean = 0.136, overlap = 116.1
steps = 92, shift = 3.62, angle = 0.00667 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
0.83390613 0.55189613 -0.00335015 -73.43627702
-0.55187723 0.83378457 -0.01532361 140.99274481
-0.00566374 0.01462733 0.99987697 21.86396213
Axis 0.02712500 0.00209530 -0.99962985
Axis point 197.90261346 191.46325336 0.00000000
Rotation angle (degrees) 33.51058531
Shift along axis -23.55240597
> view matrix models
> #21,0.83391,0.5519,-0.0033501,-69.179,-0.55188,0.83378,-0.015324,132.53,-0.0056637,0.014627,0.99988,22.417
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7667, correlation about mean = 0.1359, overlap = 116.1
steps = 84, shift = 9.49, angle = 0.00314 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
0.83391108 0.55188858 -0.00336078 -73.43216820
-0.55187015 0.83379023 -0.01527057 140.98620791
-0.00562546 0.01458901 0.99987775 21.86201743
Axis 0.02704268 0.00205104 -0.99963218
Axis point 197.89497625 191.45795337 0.00000000
Rotation angle (degrees) 33.50999423
Shift along axis -23.55061037
> view matrix models
> #21,0.83391,0.55189,-0.0033608,-71.931,-0.55187,0.83379,-0.015271,136.12,-0.0056255,0.014589,0.99988,21.909
> view matrix models
> #21,0.83391,0.55189,-0.0033608,-71.285,-0.55187,0.83379,-0.015271,135.76,-0.0056255,0.014589,0.99988,21.819
> ui mousemode right "rotate selected models"
> view matrix models
> #21,-0.99994,0.0080177,-0.0067658,342.5,0.0083566,0.99863,-0.051651,16.828,0.0063425,-0.051704,-0.99864,418.12
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.6013, correlation about mean = 0.01533, overlap = 91.89
steps = 176, shift = 23.3, angle = 9.29 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
-0.98761856 0.15454804 0.02691445 319.62331314
0.15475672 0.98793530 0.00583799 2.16131072
-0.02568748 0.00993089 -0.99962065 419.92383051
Axis 0.07757385 0.99697876 0.00395518
Axis point 162.50516682 0.00000000 207.85758739
Rotation angle (degrees) 178.48832383
Shift along axis 28.61006869
> view matrix models
> #21,-0.98654,0.16354,0.00083302,323.4,0.15982,0.9652,-0.20701,45.595,-0.034657,-0.20409,-0.97834,443.96
> ui mousemode right "translate selected models"
> view matrix models
> #21,-0.98654,0.16354,0.00083302,323.97,0.15982,0.9652,-0.20701,10.395,-0.034657,-0.20409,-0.97834,428.22
> ui mousemode right "rotate selected models"
> view matrix models
> #21,-0.86568,0.50045,0.012314,257.22,0.49704,0.86219,-0.097918,-61.736,-0.05962,-0.078645,-0.99512,420.67
> view matrix models
> #21,-0.84656,0.52907,0.058483,241.06,0.52858,0.84852,-0.02478,-80.277,-0.062735,0.009935,-0.99798,410.84
> view matrix models
> #21,-0.84457,0.53421,-0.03637,258.57,0.5332,0.8453,0.034252,-92.278,0.049041,0.0095356,-0.99875,389.97
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7248, correlation about mean = 0.07063, overlap = 102.9
steps = 120, shift = 14.9, angle = 3.52 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
-0.83322647 0.55293081 -0.00102862 246.84452020
0.55290939 0.83317450 -0.01055209 -72.61476408
-0.00497756 -0.00936103 -0.99994375 395.84992201
Axis 0.28876397 0.95738623 -0.00519356
Axis point 134.58636387 0.00000000 197.59502180
Rotation angle (degrees) 179.88183564
Shift along axis -0.29644191
> ui mousemode right "translate selected models"
> view matrix models
> #21,-0.83323,0.55293,-0.0010286,232.95,0.55291,0.83317,-0.010552,-73.552,-0.0049776,-0.009361,-0.99994,395.04
> view matrix models
> #21,-0.83323,0.55293,-0.0010286,234.56,0.55291,0.83317,-0.010552,-77.348,-0.0049776,-0.009361,-0.99994,393.98
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7248, correlation about mean = 0.07062, overlap = 102.9
steps = 124, shift = 13.3, angle = 0.00464 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
-0.83321309 0.55295094 -0.00104769 246.83345965
0.55293006 0.83316173 -0.01047725 -72.64587560
-0.00492051 -0.00930909 -0.99994452 395.83605888
Axis 0.28877558 0.95738291 -0.00516035
Axis point 134.58188835 0.00000000 197.59183112
Rotation angle (degrees) 179.88411314
Shift along axis -0.31309744
> view matrix models
> #21,-0.83321,0.55295,-0.0010477,241.59,0.55293,0.83316,-0.010477,-76.183,-0.0049205,-0.0093091,-0.99994,395.53
> fitmap #21 inMap #20
Fit map Asy_part_mask-1.mrc in map cryosparc_P1_J1963_004_volume_map_sharp.mrc
using 58319 points
correlation = 0.7249, correlation about mean = 0.07063, overlap = 102.9
steps = 88, shift = 6.34, angle = 0.00591 degrees
Position of Asy_part_mask-1.mrc (#21) relative to
cryosparc_P1_J1963_004_volume_map_sharp.mrc (#20) coordinates:
Matrix rotation and translation
-0.83324642 0.55290081 -0.00098794 246.83866174
0.55287967 0.83319590 -0.01041877 -72.65313754
-0.00493740 -0.00922762 -0.99994519 395.82709478
Axis 0.28874669 0.95739182 -0.00512388
Axis point 134.58851527 0.00000000 197.58613398
Rotation angle (degrees) 179.88182079
Shift along axis -0.31184342
> view matrix models
> #21,-0.83325,0.5529,-0.00098794,237.81,0.55288,0.8332,-0.010419,-71.908,-0.0049374,-0.0092276,-0.99995,393.62
> view matrix models
> #21,-0.83325,0.5529,-0.00098794,235.78,0.55288,0.8332,-0.010419,-74.312,-0.0049374,-0.0092276,-0.99995,394
> view matrix models
> #21,-0.83325,0.5529,-0.00098794,238.72,0.55288,0.8332,-0.010419,-73.556,-0.0049374,-0.0092276,-0.99995,393.7
> volume sel showOutlineBox true
> hide #!21 models
> hide #!20 models
> show #!21 models
> show #!20 models
> hide #!20 models
> show #!20 models
> hide #!20 models
> volume resample #21 onGrid #20
Opened Asy_part_mask-1.mrc resampled as #22, grid size 360,360,360, pixel
1.07, shown at step 1, values float32
> show #!21 models
> show #!20 models
> volume resample #21 onGrid #20
Opened Asy_part_mask-1.mrc resampled as #23, grid size 360,360,360, pixel
1.07, shown at step 1, values float32
> show #!21 models
> hide #!21 models
> select add #21
2 models selected
> select subtract #21
Nothing selected
> hide #!22 models
> show #!22 models
> close #22
> hide #!23 models
> show #!23 models
> hide #!20 models
> show #!20 models
> volume #!20,23 showOutlineBox false
> volume #!20,23 showOutlineBox true
> hide #!23 models
> show #!23 models
> hide #!20 models
> transparency #23.1 50
> volume #!23 showOutlineBox false
> volume #!23 showOutlineBox true
> show #!20 models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/Asy_part_mask-2.mrc
> models #23
> hide #!23 models
> hide #!20 models
> show #!13 models
> close #14-19
> close #20
> close #21,23
> show #!10 models
> hide #!10 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/AF_FlaA2_TDE1408_J1516map_related.pdb
Chain information for AF_FlaA2_TDE1408_J1516map_related.pdb #14
---
Chain | Description
A | No description available
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/AF_FlaA3_TDE1409_J1516map_related.pdb
Chain information for AF_FlaA3_TDE1409_J1516map_related.pdb #15
---
Chain | Description
B | No description available
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/AF_FlaAX_TDE2349_J1516map_related.pdb
Chain information for AF_FlaAX_TDE2349_J1516map_related.pdb #16
---
Chain | Description
A | No description available
> select add #14
1741 atoms, 1794 bonds, 212 residues, 1 model selected
> select subtract #14
Nothing selected
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/AF_FlaA2_TDE1408_J1516map_related.pdb
Chain information for AF_FlaA2_TDE1408_J1516map_related.pdb #17
---
Chain | Description
A | No description available
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/AF_FlaA3_TDE1409_J1516map_related.pdb
Chain information for AF_FlaA3_TDE1409_J1516map_related.pdb #18
---
Chain | Description
B | No description available
> color #16 #edff78ff
> color #16 #dffcddff
> color #16 #9bccffff
> select add #15
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> color #15 #76609fff
> select subtract #15
Nothing selected
> select add #15
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> select subtract #15
Nothing selected
> select add #15
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> select subtract #15
Nothing selected
> hide #15 models
> show #15 models
> hide #15 models
> show #15 models
> hide #15 models
> hide #17 models
> show #17 models
> select add #15
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> show #15 models
> select add #18
3620 atoms, 3708 bonds, 452 residues, 2 models selected
> color #18 #76609fff
> select subtract #15
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> select subtract #18
Nothing selected
> select add #14
1741 atoms, 1794 bonds, 212 residues, 1 model selected
> select add #17
3482 atoms, 3588 bonds, 424 residues, 2 models selected
> color #14 #58ac5aff
> color #17 #58ac5aff
> select subtract #14
1741 atoms, 1794 bonds, 212 residues, 1 model selected
> select subtract #17
Nothing selected
> select add #16
1654 atoms, 1669 bonds, 212 residues, 1 model selected
> select add #15
3464 atoms, 3523 bonds, 438 residues, 2 models selected
> select add #14
5205 atoms, 5317 bonds, 650 residues, 3 models selected
> view matrix models
> #14,1,0,0,-30.443,0,1,0,16.009,0,0,1,3.8313,#15,1,0,0,-30.443,0,1,0,16.009,0,0,1,3.8313,#16,1,0,0,-30.443,0,1,0,16.009,0,0,1,3.8313
> view matrix models
> #14,1,0,0,-15.321,0,1,0,-3.6763,0,0,1,-12.13,#15,1,0,0,-15.321,0,1,0,-3.6763,0,0,1,-12.13,#16,1,0,0,-15.321,0,1,0,-3.6763,0,0,1,-12.13
> view matrix models
> #14,1,0,0,81.353,0,1,0,-38.883,0,0,1,-19.127,#15,1,0,0,81.353,0,1,0,-38.883,0,0,1,-19.127,#16,1,0,0,81.353,0,1,0,-38.883,0,0,1,-19.127
> view matrix models
> #14,1,0,0,147.82,0,1,0,-51.008,0,0,1,-10.688,#15,1,0,0,147.82,0,1,0,-51.008,0,0,1,-10.688,#16,1,0,0,147.82,0,1,0,-51.008,0,0,1,-10.688
> select subtract #14
3464 atoms, 3523 bonds, 438 residues, 2 models selected
> select subtract #15
1654 atoms, 1669 bonds, 212 residues, 1 model selected
> view matrix models #16,1,0,0,-38.326,0,1,0,-31.322,0,0,1,0.14178
> view matrix models #16,1,0,0,-33.309,0,1,0,-11.597,0,0,1,6.2493
> view matrix models #16,1,0,0,-53.087,0,1,0,39.612,0,0,1,-35.535
> view matrix models #16,1,0,0,-30.327,0,1,0,47.775,0,0,1,-36.579
> fitmap #16 inMap #13
Fit molecule AF_FlaAX_TDE2349_J1516map_related.pdb (#16) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1654 atoms
average map value = 0.1957, steps = 80
shifted from previous position = 7.68
rotated from previous position = 15.2 degrees
atoms outside contour = 1076, contour level = 0.25
Position of AF_FlaAX_TDE2349_J1516map_related.pdb (#16) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
0.97456460 0.21810548 -0.05151547 -35.13947147
-0.20874187 0.96708851 0.14548763 39.37655800
0.08155167 -0.13103365 0.98801797 -29.13117870
Axis -0.52599725 -0.25311958 -0.81194666
Axis point 210.60354224 108.09136974 0.00000000
Rotation angle (degrees) 15.23949397
Shift along axis 32.16925082
> view matrix models
> #16,0.97456,0.21811,-0.051515,-38.844,-0.20874,0.96709,0.14549,41.429,0.081552,-0.13103,0.98802,-20.13
> fitmap #16 inMap #13
Fit molecule AF_FlaAX_TDE2349_J1516map_related.pdb (#16) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1654 atoms
average map value = 0.2463, steps = 96
shifted from previous position = 2.46
rotated from previous position = 21.4 degrees
atoms outside contour = 821, contour level = 0.25
Position of AF_FlaAX_TDE2349_J1516map_related.pdb (#16) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
0.84360178 0.53665696 -0.01831254 -68.57737779
-0.53625165 0.84374684 0.02292266 126.05216307
0.02775275 -0.00951746 0.99956951 -30.90100566
Axis -0.03019408 -0.04287588 -0.99862404
Axis point 184.78752362 180.09035144 0.00000000
Rotation angle (degrees) 32.49278913
Shift along axis 27.52452006
> select subtract #16
Nothing selected
> select add #15
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> select subtract #15
Nothing selected
> select add #17
1741 atoms, 1794 bonds, 212 residues, 1 model selected
> select add #18
3551 atoms, 3648 bonds, 438 residues, 2 models selected
> view matrix models
> #17,1,0,0,76.391,0,1,0,-106.14,0,0,1,7.2563,#18,1,0,0,76.391,0,1,0,-106.14,0,0,1,7.2563
> ui mousemode right select
> select clear
> select add #15
1810 atoms, 1854 bonds, 226 residues, 1 model selected
Drag select of 234 residues
> ui mousemode right "translate selected models"
> view matrix models
> #15,1,0,0,147.84,0,1,0,-50.988,0,0,1,-10.563,#17,1,0,0,76.408,0,1,0,-106.12,0,0,1,7.3811,#18,1,0,0,76.408,0,1,0,-106.12,0,0,1,7.3811
> select add #15
3092 atoms, 1854 bonds, 380 residues, 3 models selected
> select add #17
4183 atoms, 3648 bonds, 515 residues, 3 models selected
> select add #18
5361 atoms, 5502 bonds, 664 residues, 3 models selected
> select subtract #17
3620 atoms, 3708 bonds, 452 residues, 2 models selected
> select subtract #18
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> select subtract #15
Nothing selected
> select add #15
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> view matrix models #15,1,0,0,114.55,0,1,0,-48.883,0,0,1,-73.504
> color #15 #58ac5aff
> color #18 #58ac5aff
> color #15 #76609fff
> color #18 #76609fff
> view matrix models #15,1,0,0,122.31,0,1,0,-52.098,0,0,1,-120.46
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.98566,0.0022882,0.16872,90.771,0.017294,0.99327,-0.11451,-31.236,-0.16784,0.11578,0.97899,-104.37
> view matrix models
> #15,0.92398,0.035035,0.38083,54.251,0.068788,0.96433,-0.25561,-7.6909,-0.3762,0.26238,0.88861,-71.993
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.92398,0.035035,0.38083,-121.37,0.068788,0.96433,-0.25561,27.213,-0.3762,0.26238,0.88861,-59.611
> view matrix models
> #15,0.92398,0.035035,0.38083,-166.82,0.068788,0.96433,-0.25561,28.427,-0.3762,0.26238,0.88861,67.411
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.88044,0.37698,-0.28758,-68.823,-0.4638,0.5587,-0.68756,245.4,-0.098526,0.73874,0.66675,10.969
> view matrix models
> #15,0.91511,0.39967,-0.053358,-123.39,-0.32159,0.64361,-0.69451,214.55,-0.24323,0.65271,0.7175,33.642
> view matrix models
> #15,0.9826,0.16015,-0.094023,-96.787,-0.18558,0.86577,-0.46475,121.11,0.0069703,0.47412,0.88043,-15.725
> view matrix models
> #15,0.82904,0.2084,-0.51891,5.3925,-0.47349,0.75531,-0.45312,176.61,0.29751,0.62135,0.72485,-47.514
> view matrix models
> #15,0.86355,0.14113,-0.48412,1.2921,-0.27147,0.93916,-0.21045,75.045,0.42496,0.31316,0.84932,-54.629
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.86355,0.14113,-0.48412,33.738,-0.27147,0.93916,-0.21045,142.09,0.42496,0.31316,0.84932,-48.014
> view matrix models
> #15,0.86355,0.14113,-0.48412,46.935,-0.27147,0.93916,-0.21045,91.288,0.42496,0.31316,0.84932,-44.048
> view matrix models
> #15,0.86355,0.14113,-0.48412,63.14,-0.27147,0.93916,-0.21045,126.61,0.42496,0.31316,0.84932,-48.726
> fitmap #15 inMap #13
Fit molecule AF_FlaA3_TDE1409_J1516map_related.pdb (#15) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1810 atoms
average map value = 0.185, steps = 84
shifted from previous position = 6.61
rotated from previous position = 13.8 degrees
atoms outside contour = 1207, contour level = 0.25
Position of AF_FlaA3_TDE1409_J1516map_related.pdb (#15) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
0.80996347 0.29488307 -0.50695479 61.14797548
-0.47644030 0.83490593 -0.27556621 183.10314160
0.34199975 0.46473225 0.81673748 -42.79256558
Axis 0.54227330 -0.62186456 -0.56499924
Axis point 262.76609674 0.00000000 82.58489470
Rotation angle (degrees) 43.04620866
Shift along axis -56.52867366
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.91156,0.30929,-0.27091,-3.1133,-0.33353,0.94155,-0.047304,102.86,0.24045,0.13348,0.96144,-15.777
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.91156,0.30929,-0.27091,-4.7426,-0.33353,0.94155,-0.047304,103.12,0.24045,0.13348,0.96144,-21.065
> fitmap #15 inMap #13
Fit molecule AF_FlaA3_TDE1409_J1516map_related.pdb (#15) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1810 atoms
average map value = 0.2451, steps = 60
shifted from previous position = 5.5
rotated from previous position = 21.8 degrees
atoms outside contour = 879, contour level = 0.25
Position of AF_FlaA3_TDE1409_J1516map_related.pdb (#15) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
0.81065386 0.58460052 -0.03290231 -68.66903293
-0.58530216 0.81061655 -0.01794984 149.10456039
0.01617767 0.03380890 0.99929738 15.21395357
Axis 0.04415992 -0.04187443 -0.99814650
Axis point 195.13840981 178.81870158 0.00000000
Rotation angle (degrees) 35.87632265
Shift along axis -24.46184257
> select subtract #15
Nothing selected
> select add #14
1741 atoms, 1794 bonds, 212 residues, 1 model selected
> view matrix models #14,1,0,0,106.35,0,1,0,-35.132,0,0,1,-98.914
> view matrix models #14,1,0,0,88.597,0,1,0,-75.646,0,0,1,-111.63
> view matrix models #14,1,0,0,-38.346,0,1,0,21.865,0,0,1,-26.588
> fitmap #14 inMap #13
Fit molecule AF_FlaA2_TDE1408_J1516map_related.pdb (#14) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1741 atoms
average map value = 0.1907, steps = 112
shifted from previous position = 5.99
rotated from previous position = 24 degrees
atoms outside contour = 1165, contour level = 0.25
Position of AF_FlaA2_TDE1408_J1516map_related.pdb (#14) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
0.92470264 0.23620991 -0.29854632 20.41391322
-0.18836573 0.96539127 0.18038308 10.92330556
0.33082228 -0.11056481 0.93719371 -57.80899932
Axis -0.35785568 -0.77410126 -0.52221313
Axis point 160.54621305 0.00000000 45.17965605
Rotation angle (degrees) 23.98614204
Shift along axis 14.42763875
> view matrix models
> #14,0.9247,0.23621,-0.29855,14.737,-0.18837,0.96539,0.18038,4.1556,0.33082,-0.11056,0.93719,-62.679
> ui mousemode right "rotate selected models"
> view matrix models
> #14,0.98106,0.086501,-0.1733,-12.01,-0.031342,0.95384,0.29867,-54.344,0.19113,-0.28759,0.93849,-18.038
> view matrix models
> #14,0.98751,0.10734,-0.11532,-30.566,-0.062785,0.93946,0.33685,-56.931,0.14449,-0.32541,0.93447,-4.2851
> view matrix models
> #14,0.99146,0.02165,0.1286,-85.516,-0.025124,0.99936,0.02545,10.731,-0.12797,-0.028463,0.99137,-1.1436
> view matrix models
> #14,0.98508,0.10945,0.13283,-94.979,-0.11174,0.99369,0.0099331,31.355,-0.1309,-0.024628,0.99109,-0.94538
> ui mousemode right "translate selected models"
> view matrix models
> #14,0.98508,0.10945,0.13283,-88.095,-0.11174,0.99369,0.0099331,39.651,-0.1309,-0.024628,0.99109,-1.8914
> view matrix models
> #14,0.98508,0.10945,0.13283,-83.416,-0.11174,0.99369,0.0099331,37.246,-0.1309,-0.024628,0.99109,0.50859
> fitmap #14 inMap #13
Fit molecule AF_FlaA2_TDE1408_J1516map_related.pdb (#14) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1741 atoms
average map value = 0.222, steps = 88
shifted from previous position = 3.34
rotated from previous position = 25.9 degrees
atoms outside contour = 986, contour level = 0.25
Position of AF_FlaA2_TDE1408_J1516map_related.pdb (#14) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
0.85836215 0.51286471 -0.01357207 -69.54179890
-0.51292932 0.85842945 -0.00154318 126.10408312
0.01085922 0.00828612 0.99990670 -30.67960738
Axis 0.00957898 -0.02380911 -0.99967063
Axis point 194.69944433 189.86927383 0.00000000
Rotation angle (degrees) 30.86827162
Shift along axis 27.00093655
> select subtract #14
Nothing selected
> select add #17
1741 atoms, 1794 bonds, 212 residues, 1 model selected
> ui mousemode right "rotate selected models"
> view matrix models
> #17,-0.8048,0.46938,-0.36328,452.71,0.53834,0.83502,-0.11371,-157.81,0.24998,-0.28709,-0.92471,493.82
> view matrix models
> #17,-0.95084,0.020803,-0.30898,514.22,0.079318,0.98082,-0.17805,-72.28,0.29935,-0.19381,-0.93425,477.07
> ui mousemode right "translate selected models"
> view matrix models
> #17,-0.95084,0.020803,-0.30898,489.5,0.079318,0.98082,-0.17805,-2.5519,0.29935,-0.19381,-0.93425,450.84
> view matrix models
> #17,-0.95084,0.020803,-0.30898,443.54,0.079318,0.98082,-0.17805,-11.39,0.29935,-0.19381,-0.93425,448.43
> view matrix models
> #17,-0.95084,0.020803,-0.30898,434.53,0.079318,0.98082,-0.17805,20.078,0.29935,-0.19381,-0.93425,448.08
> view matrix models
> #17,-0.95084,0.020803,-0.30898,419.49,0.079318,0.98082,-0.17805,9.6242,0.29935,-0.19381,-0.93425,445.41
> view matrix models
> #17,-0.95084,0.020803,-0.30898,409.77,0.079318,0.98082,-0.17805,21.154,0.29935,-0.19381,-0.93425,450.65
> view matrix models
> #17,-0.95084,0.020803,-0.30898,414.66,0.079318,0.98082,-0.17805,20.56,0.29935,-0.19381,-0.93425,445.25
> fitmap #17 inMap #13
Fit molecule AF_FlaA2_TDE1408_J1516map_related.pdb (#17) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1741 atoms
average map value = 0.2258, steps = 88
shifted from previous position = 13.7
rotated from previous position = 34.4 degrees
atoms outside contour = 942, contour level = 0.25
Position of AF_FlaA2_TDE1408_J1516map_related.pdb (#17) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
-0.86892007 0.49493059 0.00465124 271.50263687
0.49476335 0.86829002 0.03580029 -85.13668307
0.01368003 0.03340885 -0.99934814 486.27860771
Axis -0.25599815 -0.96651149 -0.01790192
Axis point 146.43872302 0.00000000 244.25704519
Rotation angle (degrees) 179.73238118
Shift along axis 4.07608758
> select subtract #17
Nothing selected
> select add #18
1810 atoms, 1854 bonds, 226 residues, 1 model selected
> view matrix models #18,1,0,0,160.67,0,1,0,-103.23,0,0,1,-15.481
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.80113,0.10689,-0.58886,295.29,-0.070087,0.99391,0.085061,-108.55,0.59437,-0.026874,0.80374,-65.063
> view matrix models
> #18,0.98687,-0.022674,0.1599,133.71,0.025104,0.9996,-0.013189,-104.44,-0.15954,0.01703,0.98705,9.6633
> view matrix models
> #18,0.89989,0.034457,0.43476,85.701,-0.02375,0.99927,-0.030037,-93.517,-0.43547,0.016704,0.90005,69.568
> view matrix models
> #18,0.99816,-0.046144,0.039431,158.71,0.046589,0.99886,-0.010449,-108.21,-0.038904,0.012267,0.99917,-10.792
> view matrix models
> #18,-0.18969,0.96624,-0.17437,262.14,-0.9745,-0.1636,0.15354,157.44,0.11983,0.19905,0.97264,-52.616
> view matrix models
> #18,-0.051029,0.93392,0.35381,139.84,-0.97359,0.03241,-0.22597,208.9,-0.22251,-0.356,0.90761,80.242
> view matrix models
> #18,-0.26427,0.87251,0.41096,168.85,0.95149,0.30549,-0.03673,-158.89,-0.15759,0.38132,-0.91091,341.89
> view matrix models
> #18,-0.17586,-0.90312,0.39172,373.68,-0.9216,0.29091,0.25696,73.803,-0.34602,-0.31582,-0.88348,449.82
> view matrix models
> #18,0.93845,-0.10171,0.3301,116.97,0.017116,-0.9408,-0.33854,195.92,0.34499,0.32335,-0.88115,265.4
> view matrix models
> #18,0.72733,0.28258,-0.62541,292.69,-0.02566,0.92186,0.38668,-166.54,0.68581,-0.2652,0.67774,-25.371
> view matrix models
> #18,0.63051,-0.7755,-0.032658,317.95,0.77518,0.63127,-0.024349,-173.51,0.039499,-0.0099636,0.99917,-20.21
> view matrix models
> #18,0.1921,-0.97363,0.12305,378.7,0.98092,0.19432,0.006186,-158.51,-0.029934,0.11951,0.99238,-23.795
> view matrix models
> #18,-0.85604,0.32973,0.39808,328.4,-0.24547,0.41842,-0.87445,178.47,-0.4549,-0.84629,-0.27725,410.48
> view matrix models
> #18,-0.863,0.42172,0.27816,342.14,-0.020867,0.52037,-0.85369,127.35,-0.50476,-0.74254,-0.44028,437.98
> view matrix models
> #18,-0.79642,0.03891,0.60349,313.59,-0.45054,0.62749,-0.63503,137.36,-0.40339,-0.77765,-0.48222,434.9
> view matrix models
> #18,-0.80609,0.30941,0.50447,302.03,-0.21091,0.64627,-0.73338,117.6,-0.55294,-0.69757,-0.45569,443.04
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.80609,0.30941,0.50447,194.87,-0.21091,0.64627,-0.73338,180.4,-0.55294,-0.69757,-0.45569,477.26
> view matrix models
> #18,-0.80609,0.30941,0.50447,192.65,-0.21091,0.64627,-0.73338,210.66,-0.55294,-0.69757,-0.45569,491.4
> view matrix models
> #18,-0.80609,0.30941,0.50447,189.69,-0.21091,0.64627,-0.73338,211.63,-0.55294,-0.69757,-0.45569,492.4
> fitmap #18 inMap #13
Fit molecule AF_FlaA3_TDE1409_J1516map_related.pdb (#18) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1810 atoms
average map value = 0.1762, steps = 144
shifted from previous position = 6.43
rotated from previous position = 39.6 degrees
atoms outside contour = 1306, contour level = 0.25
Position of AF_FlaA3_TDE1409_J1516map_related.pdb (#18) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
-0.46380271 -0.13971351 0.87485267 112.80590768
-0.69660254 0.66764004 -0.26268172 190.91793624
-0.54738649 -0.73125708 -0.40697804 480.72867043
Axis -0.29329227 0.89021273 -0.34856986
Axis point 219.52835267 0.00000000 248.66233807
Rotation angle (degrees) 126.98244892
Shift along axis -30.69504789
> view matrix models
> #18,-0.4638,-0.13971,0.87485,208.53,-0.6966,0.66764,-0.26268,191,-0.54739,-0.73126,-0.40698,473.91
> view matrix models
> #18,-0.4638,-0.13971,0.87485,231.57,-0.6966,0.66764,-0.26268,180.51,-0.54739,-0.73126,-0.40698,475.41
> view matrix models
> #18,-0.4638,-0.13971,0.87485,231.07,-0.6966,0.66764,-0.26268,180.98,-0.54739,-0.73126,-0.40698,481.44
> view matrix models
> #18,-0.4638,-0.13971,0.87485,157.76,-0.6966,0.66764,-0.26268,141.27,-0.54739,-0.73126,-0.40698,444.48
> view matrix models
> #18,-0.4638,-0.13971,0.87485,156.33,-0.6966,0.66764,-0.26268,162.46,-0.54739,-0.73126,-0.40698,472.67
> view matrix models
> #18,-0.4638,-0.13971,0.87485,141.28,-0.6966,0.66764,-0.26268,148.89,-0.54739,-0.73126,-0.40698,469.77
> view matrix models
> #18,-0.4638,-0.13971,0.87485,100.92,-0.6966,0.66764,-0.26268,181.94,-0.54739,-0.73126,-0.40698,484.14
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.8601,0.23145,0.45459,200.62,-0.31582,0.45821,-0.83084,261.2,-0.40059,-0.85818,-0.32101,459.76
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.8601,0.23145,0.45459,214.51,-0.31582,0.45821,-0.83084,257.54,-0.40059,-0.85818,-0.32101,456.45
> view matrix models
> #18,-0.8601,0.23145,0.45459,212.93,-0.31582,0.45821,-0.83084,258.93,-0.40059,-0.85818,-0.32101,462.37
> view matrix models
> #18,-0.8601,0.23145,0.45459,205.76,-0.31582,0.45821,-0.83084,271.41,-0.40059,-0.85818,-0.32101,460.67
> view matrix models
> #18,-0.8601,0.23145,0.45459,216.57,-0.31582,0.45821,-0.83084,272.11,-0.40059,-0.85818,-0.32101,456.93
> view matrix models
> #18,-0.8601,0.23145,0.45459,364.62,-0.31582,0.45821,-0.83084,288.13,-0.40059,-0.85818,-0.32101,471.37
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.70486,0.66487,-0.24721,427.5,-0.69602,-0.71549,0.060233,311.93,-0.13683,0.21452,0.96709,45.398
> view matrix models
> #18,0.77749,0.34726,-0.52433,292,-0.62799,0.38391,-0.67694,314.78,-0.03378,0.85559,0.51656,41.375
> view matrix models
> #18,0.76732,0.5381,-0.34881,235.68,-0.5927,0.38746,-0.70611,314.68,-0.2448,0.74855,0.61624,67.12
> view matrix models
> #18,0.99019,0.090462,0.10649,165.05,0.0336,0.58559,-0.80991,214.63,-0.13562,0.80554,0.57681,51.195
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.99019,0.090462,0.10649,122.37,0.0336,0.58559,-0.80991,223.14,-0.13562,0.80554,0.57681,18.257
> view matrix models
> #18,0.99019,0.090462,0.10649,108.25,0.0336,0.58559,-0.80991,190,-0.13562,0.80554,0.57681,11.819
> view matrix models
> #18,0.99019,0.090462,0.10649,21.689,0.0336,0.58559,-0.80991,206.56,-0.13562,0.80554,0.57681,47.607
> fitmap #18 inMap #13
Fit molecule AF_FlaA3_TDE1409_J1516map_related.pdb (#18) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1810 atoms
average map value = 0.1684, steps = 144
shifted from previous position = 6.85
rotated from previous position = 46.8 degrees
atoms outside contour = 1384, contour level = 0.25
Position of AF_FlaA3_TDE1409_J1516map_related.pdb (#18) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
0.78594127 -0.48773972 0.38000827 65.23954878
0.47632841 0.08576402 -0.87507473 207.32611999
0.39421767 0.86876607 0.29972977 15.50179404
Axis 0.87514138 -0.00713094 0.48381476
Axis point 0.00000000 113.28927196 119.07904694
Rotation angle (degrees) 85.08271286
Shift along axis 63.11539415
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.89044,0.21944,0.39871,-40.097,0.34628,0.24183,-0.90643,214.76,-0.29532,0.94518,0.13934,144.55
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.89044,0.21944,0.39871,-0.63947,0.34628,0.24183,-0.90643,178.1,-0.29532,0.94518,0.13934,126.45
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.84005,-0.53716,0.076058,162.62,0.41103,0.53866,-0.73546,98.295,0.35409,0.64908,0.67329,-43.959
> view matrix models
> #18,0.8889,0.085587,-0.45004,184.18,-0.32381,0.8123,-0.48509,129,0.32405,0.57692,0.74977,-45.773
> view matrix models
> #18,0.92925,0.22399,-0.29382,130.22,-0.35579,0.75685,-0.54826,153.17,0.09957,0.614,0.783,-22.189
> view matrix models
> #18,0.96637,-0.22297,0.12811,94.809,0.25712,0.84658,-0.46604,31.379,-0.0045416,0.4833,0.87544,-8.655
> view matrix models
> #18,0.87691,-0.40633,0.25677,105.26,0.47973,0.77305,-0.41504,-4.2215,-0.029852,0.48713,0.87282,-4.6894
> view matrix models
> #18,0.87277,-0.37271,0.31522,90.24,0.47633,0.79144,-0.38306,-12.265,-0.10671,0.48447,0.86828,8.4002
> view matrix models
> #18,0.88636,-0.43248,0.16528,125.12,0.45087,0.88743,-0.095832,-76.926,-0.10523,0.15946,0.98158,24.982
> view matrix models
> #18,0.82704,-0.54677,0.13058,154.98,0.5534,0.83272,-0.018212,-101.54,-0.098776,0.087323,0.99127,30.784
> view matrix models
> #18,0.85718,-0.51484,-0.013936,175.14,0.51502,0.85698,0.018337,-105.8,0.0025018,-0.022896,0.99973,26.792
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.85718,-0.51484,-0.013936,135.64,0.51502,0.85698,0.018337,-81.907,0.0025018,-0.022896,0.99973,16.213
> view matrix models
> #18,0.85718,-0.51484,-0.013936,137.4,0.51502,0.85698,0.018337,-82.097,0.0025018,-0.022896,0.99973,31.746
> view matrix models
> #18,0.85718,-0.51484,-0.013936,128.48,0.51502,0.85698,0.018337,-80.501,0.0025018,-0.022896,0.99973,31.106
> fitmap #18 inMap #13
Fit molecule AF_FlaA3_TDE1409_J1516map_related.pdb (#18) to map
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) using 1810 atoms
average map value = 0.2125, steps = 52
shifted from previous position = 4.6
rotated from previous position = 6.1 degrees
atoms outside contour = 1098, contour level = 0.25
Position of AF_FlaA3_TDE1409_J1516map_related.pdb (#18) relative to
cryosparc_P1_J1947_class_00_00028_volume.mrc (#13) coordinates:
Matrix rotation and translation
0.90422286 -0.42640262 -0.02370305 113.52761689
0.42616593 0.90452839 -0.01452603 -61.42822178
0.02763402 0.00303333 0.99961351 23.56381918
Axis 0.02055425 -0.06009302 0.99798114
Axis point 189.75407745 222.19918970 0.00000000
Rotation angle (degrees) 25.28661339
Shift along axis 29.54112955
> select subtract #18
Nothing selected
> transparency #13.1 50
> view orient
> view
> ui tool show "Surface Color"
> ui tool show "Color Zone"
> color zone #13 near #14 distance 16.02
> color zone #13 near #14 distance 14.97
> color zone #13 near #14 distance 4.35
> volume splitbyzone #13
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 0 as #19.1, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 1 as #19.2, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
> hide #!19 models
> show #!19 models
> hide #!19.2 models
> show #!19.2 models
> color zone #13 near #15 distance 4.35
> hide #!19 models
> show #!13 models
> color zone #13 near #15 distance 4.45
> color zone #13 near #15 distance 2.98
> color zone #13 near #15 distance 2.91
> color zone #13 near #15 distance 3.01
> volume splitbyzone #13
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 0 as #20.1, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 1 as #20.2, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
> hide #!20 models
> show #!13 models
> color zone #13 near #16 distance 3.01
> color zone #13 near #16 distance 2.88
> color zone #13 near #16 distance 2.97
> color zone #13 near #16 distance 3.07
> volume splitbyzone #13
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 0 as #21.1, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 1 as #21.2, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
> hide #!21 models
> show #!13 models
> color zone #13 near #17 distance 3.07
> color zone #13 near #17 distance 3.17
> color zone #13 near #17 distance 3.07
> color zone #13 near #17 distance 2.97
> color zone #13 near #17 distance 2.87
> color zone #13 near #17 distance 2.77
> color zone #13 near #17 distance 2.67
> color zone #13 near #17 distance 2.77
> color zone #13 near #17 distance 2.87
> color zone #13 near #17 distance 2.97
> color zone #13 near #17 distance 3.07
> volume splitbyzone #13
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 0 as #22.1, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 1 as #22.2, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
> hide #!22 models
> show #!13 models
> color zone #13 near #18 distance 3.07
> volume splitbyzone #13
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 0 as #23.1, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
Opened cryosparc_P1_J1947_class_00_00028_volume.mrc 1 as #23.2, grid size
144,144,144, pixel 2.67, shown at level 0.25, step 1, values float32
> hide #!23 models
> show #!13 models
> show #!19 models
> hide #!19.1 models
> show #!20 models
> hide #!20.1 models
> show #!21 models
> hide #!21.1 models
> show #!22 models
> hide #!22.1 models
> show #!23 models
> hide #!23.1 models
> volume #13 level 0.3
> volume #13 level 0.28
> volume #13 level 0.3
> surface dust #13 size 26.7
> surface dust #19.2 size 26.7
> surface dust #20.2 size 26.7
> surface dust #21.2 size 26.7
> surface dust #22.2 size 26.7
> surface dust #23.2 size 26.7
> volume #19.2 level 0.28
> volume #20.2 level 0.28
> volume #21.2 level 0.28
> volume #22.2 level 0.28
> volume #23.2 level 0.28
Color zone shortcut requires 1 displayed atomic model and 1 map, got 5 atomic
models, 6 maps.
> surface dust #13 size 26.7
> surface dust #19.2 size 26.7
> surface dust #20.2 size 26.7
> surface dust #21.2 size 26.7
> surface dust #22.2 size 26.7
> surface dust #23.2 size 26.7
> surface dust #13 size 26.7
> surface dust #19.2 size 26.7
> surface dust #20.2 size 26.7
> surface dust #21.2 size 26.7
> surface dust #22.2 size 26.7
> surface dust #23.2 size 26.7
> surface dust #13 size 26.7
> surface dust #19.2 size 26.7
> surface dust #20.2 size 26.7
> surface dust #21.2 size 26.7
> surface dust #22.2 size 26.7
> surface dust #23.2 size 26.7
> volume #23.2 level 0.25
> volume #22.2 level 0.25
> volume #21.2 level 0.25
> volume #20.2 level 0.25
> volume #19.2 level 0.25
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Borrelia_Burgdorferi/Motor/Local_NU/cryosparc_P1_J1950_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1950_002_volume_map_sharp.mrc as #24, grid size
640,640,640, pixel 1.35, shown at level 0.114, step 4, values float32
> volume #24 step 1
> hide #14-18#!13,19-23 target m
> surface dust #24 size 13.5
> view orient
> view
> volume #24 level 0.2
> volume #24 level 0.15
> volume #24 level 0.12
> volume #24 level 0.13
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J1975_003_volume_map_sharp.mrc
Opened cryosparc_P1_J1975_003_volume_map_sharp.mrc as #25, grid size
360,360,360, pixel 1.07, shown at level 0.0963, step 2, values float32
> hide #!24 models
> volume #25 step 1
> volume #25 level 0.07189
> surface dust #25 size 10.7
> volume #25 level 0.08
> volume #25 level 0.09
> volume #25 level 0.085
> surface dust #25 size 10.7
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J1971_003_volume_map_sharp.mrc
Opened cryosparc_P1_J1971_003_volume_map_sharp.mrc as #26, grid size
360,360,360, pixel 1.07, shown at level 0.0969, step 2, values float32
> hide #!25 models
> volume #26 step 1
> surface dust #26 size 10.7
> volume #26 level 0.08065
> volume #26 level 0.08
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1978/cryosparc_P1_J1962_class_14_00022_volume.mrc
Opened cryosparc_P1_J1962_class_14_00022_volume.mrc as #27, grid size
144,144,144, pixel 2.67, shown at level 0.44, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J1978/cryosparc_P1_J1978_map_aligned_0.mrc
Opened cryosparc_P1_J1978_map_aligned_0.mrc as #28, grid size 144,144,144,
pixel 2.67, shown at level 0.333, step 1, values float32
> hide #!26 models
> volume #28 level 0.2345
> volume #27 level 0.3676
> volume #27 level 0.259
> show #!13 models
> hide #!28 models
> color single #13
> show #14 models
> show #15 models
> show #16 models
> show #17 models
> show #18 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_monox33.pdb
Summary of feedback from opening
/Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_monox33.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 1 TYR A 54 VAL A 57 1 4
Start residue of secondary structure not found: HELIX 2 2 GLN A 66 LEU A 69 1
4
Start residue of secondary structure not found: HELIX 3 3 LEU A 76 GLN A 78 1
3
Start residue of secondary structure not found: HELIX 4 4 PRO A 90 THR A 95 1
6
Start residue of secondary structure not found: HELIX 5 5 ALA A 159 ALA A 163
1 5
15 messages similar to the above omitted
Chain information for FlaA1_monox33.pdb
---
Chain | Description
29.1/3 29.12/O 29.15/c | No description available
29.2/5 | No description available
29.4/A | No description available
29.5/AC 29.18/w | No description available
29.6/C | No description available
29.7/E | No description available
29.8/G 29.11/M 29.17/g | No description available
29.9/I | No description available
29.13/Y | No description available
29.14/a | No description available
29.16/e | No description available
Computing secondary structure
> close #29
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_sheath_monox33_real_refine.pdb
Chain information for FlaA1_sheath_monox33_real_refine.pdb #29
---
Chain | Description
A B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g | No description available
> hide atoms
> show cartoons
> hide #!13 models
> ui mousemode right select
> select #29/G:26
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #29/E:226
15 atoms, 13 bonds, 2 residues, 1 model selected
> select add #29/H:225
23 atoms, 20 bonds, 3 residues, 1 model selected
> split #29
Split FlaA1_sheath_monox33_real_refine.pdb (#29) into 33 models
Chain information for FlaA1_sheath_monox33_real_refine.pdb A #29.1
---
Chain | Description
A | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb B #29.2
---
Chain | Description
B | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb C #29.3
---
Chain | Description
C | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb D #29.4
---
Chain | Description
D | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb E #29.5
---
Chain | Description
E | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb F #29.6
---
Chain | Description
F | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb G #29.7
---
Chain | Description
G | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb H #29.8
---
Chain | Description
H | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb I #29.9
---
Chain | Description
I | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb J #29.10
---
Chain | Description
J | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb K #29.11
---
Chain | Description
K | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb L #29.12
---
Chain | Description
L | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb M #29.13
---
Chain | Description
M | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb N #29.14
---
Chain | Description
N | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb O #29.15
---
Chain | Description
O | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb P #29.16
---
Chain | Description
P | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb Q #29.17
---
Chain | Description
Q | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb R #29.18
---
Chain | Description
R | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb S #29.19
---
Chain | Description
S | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb T #29.20
---
Chain | Description
T | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb U #29.21
---
Chain | Description
U | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb V #29.22
---
Chain | Description
V | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb W #29.23
---
Chain | Description
W | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb X #29.24
---
Chain | Description
X | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb Y #29.25
---
Chain | Description
Y | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb Z #29.26
---
Chain | Description
Z | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb a #29.27
---
Chain | Description
a | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb b #29.28
---
Chain | Description
b | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb c #29.29
---
Chain | Description
c | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb d #29.30
---
Chain | Description
d | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb e #29.31
---
Chain | Description
e | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb f #29.32
---
Chain | Description
f | No description available
Chain information for FlaA1_sheath_monox33_real_refine.pdb g #29.33
---
Chain | Description
g | No description available
> select clear
> select #29.5/E:187
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #29.5/E:226
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #29.7/G:27
15 atoms, 13 bonds, 2 residues, 2 models selected
> select add #29.8/H:188
23 atoms, 20 bonds, 3 residues, 3 models selected
> select add #29.5
2632 atoms, 2683 bonds, 330 residues, 3 models selected
> select add #29.7
5240 atoms, 5345 bonds, 657 residues, 3 models selected
> select add #29.8
7848 atoms, 8007 bonds, 984 residues, 3 models selected
> select subtract #29.8
5232 atoms, 5338 bonds, 656 residues, 2 models selected
> select subtract #29.7
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> select subtract #29.5
Nothing selected
> hide #29.5,7-8 target m
> select #14/A:86
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #29.21/U:312
9 atoms, 8 bonds, 1 residue, 1 model selected
> hide #29.21 target m
> select add #29.21
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> select #29.20/T:299
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #29.22/V:304
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #29.20/T:299
17 atoms, 15 bonds, 2 residues, 2 models selected
> hide #29.20 target m
> hide #29.22 target m
> select add #29.20
2625 atoms, 2677 bonds, 329 residues, 2 models selected
> select add #29.22
5232 atoms, 5338 bonds, 656 residues, 2 models selected
> select subtract #29.20
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> select subtract #29.22
Nothing selected
> select #29.24/X:185
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #29.23/W:188
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #29.25/Y:227
30 atoms, 29 bonds, 3 residues, 3 models selected
> hide #29.23-25 target m
> select add #29.23
2638 atoms, 2691 bonds, 330 residues, 3 models selected
> select add #29.24
5246 atoms, 5353 bonds, 657 residues, 3 models selected
> select add #29.25
7848 atoms, 8007 bonds, 984 residues, 3 models selected
> select subtract #29.24
5232 atoms, 5338 bonds, 656 residues, 2 models selected
> select subtract #29.23
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> select subtract #29.25
Nothing selected
> select clear
Drag select of 1934 residues
> hide #29.1-2,4,6,10,13,15,17,19 target m
> select add #29
86328 atoms, 88077 bonds, 10824 residues, 34 models selected
> select subtract #29
Nothing selected
> select clear
Drag select of 647 residues
> select add #29.28
5629 atoms, 2669 bonds, 706 residues, 3 models selected
> select add #29.29
7784 atoms, 5338 bonds, 977 residues, 3 models selected
> select add #29.31
7848 atoms, 8007 bonds, 984 residues, 3 models selected
> hide #29.28-29 target m
> hide #29.31 target m
> select subtract #29.31
5232 atoms, 5338 bonds, 656 residues, 2 models selected
> select subtract #29.29
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> select subtract #29.28
Nothing selected
> select #29.16/P:279
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #29.16
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> hide #29.16 models
> select subtract #29.16
Nothing selected
> select #29.11/K:26
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #29.11/K:26
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #29.11
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> hide #29.11 models
> select subtract #29.11
Nothing selected
> select #29.33/g:310
11 atoms, 10 bonds, 1 residue, 1 model selected
> select add #29.33
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> hide #29.33 models
> select subtract #29.33
Nothing selected
> select #29.27/a:319
4 atoms, 3 bonds, 1 residue, 1 model selected
> select clear
> select #29.26/Z:310
11 atoms, 10 bonds, 1 residue, 1 model selected
> select add #29.26
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> hide #29.26 models
> select subtract #29.26
Nothing selected
> color #29 #bf92bdff models
> color #29 #bfa7a9ff models
> color #29 #bfaba4ff models
> color #29 #bfbba5ff models
> color #29 #bfbdbbff models
> color #29 #bf9db0ff models
> color #29 #bf97aaff models
> color #29 #bf94a7ff models
> color #29 #d0a0b5ff models
> show #!13 models
> view orient
> view
> view orient
> view
> view orient
> view
> show #!26 models
> hide #!13 models
> hide #14 models
> hide #15 models
> hide #16 models
> hide #17 models
> hide #18 models
> hide #!29 models
> volume #26 level 0.06917
> surface dust #26 size 10.7
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J1979_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1979_002_volume_map_sharp.mrc as #30, grid size
360,360,360, pixel 1.07, shown at level 0.122, step 2, values float32
> hide #!26 models
> hide #!30 models
> show #!30 models
> surface dust #30 size 10.7
> volume #30 step 1
> volume #30 level 0.08166
> volume #30 level 0.08
> volume #30 level 0.085
> volume #30 level 0.09
> volume #30 level 0.1
> show #!13 models
> hide #!30 models
> color #13 #b7b7b77e models
> color #13 #b7b7b7ff models
> color #13 #b7b7b782 models
> color #13 #bbbbbbff models
> show #!30 models
> hide #!13 models
> show #!26 models
> hide #!30 models
> show #!25 models
> hide #!26 models
> volume #25 level 0.09605
> volume #25 level 0.1
> volume #25 level 0.08
> volume #25 level 0.09
> volume #25 level 0.085
> volume #25 level 0.088
> color #25 #bbbbbbff models
> color #25 #d0d0d0ff models
> color #25 #c6c6c6ff models
> show #!13 models
> hide #!13 models
> show #!13 models
> hide #!25 models
> open
> "/Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J1964_002_volume_map_sharp
> (1).mrc"
Opened cryosparc_P1_J1964_002_volume_map_sharp (1).mrc as #31, grid size
360,360,360, pixel 1.07, shown at level 0.118, step 2, values float32
> hide #!13 models
> volume #31 step 1
> volume #31 level 0.07257
> surface dust #31 size 10.7
> volume #31 level 0.07943
> show #!30 models
> hide #!31 models
> show #!25 models
> hide #!30 models
> volume #25 level 0.09
> volume #25 level 0.095
> volume #25 level 0.1
> volume #25 level 0.09
> surface dust #25 size 10.7
> show #!13 models
> hide #!13 models
> show #14 models
> show #15 models
> show #16 models
> show #17 models
> show #18 models
> color #25 #e2ddda7f models
> color #25 #cacacc80 models
> color #25 #a2a2a34d models
> hide #!25 models
> hide #14 models
> hide #15 models
> hide #16 models
> hide #17 models
> hide #18 models
> show #!13 models
> view orient
> view
> show #14 models
> show #15 models
> show #16 models
> show #17 models
> show #18 models
> show #!19 models
> show #!20 models
> show #!21 models
> show #!22 models
> show #!23 models
> hide #!13 models
> show #!13 models
> hide #!19 models
> hide #!20 models
> hide #!21 models
> hide #!22 models
> hide #!23 models
> hide #!13 models
> hide #15 models
> hide #18 models
> hide #16 models
> show #18 models
> show #15 models
> view orient
> view
> hide #17 models
> hide #15 models
> show #15 models
> hide #14 models
> show #!25 models
> hide #18 models
> show #18 models
> show #16 models
> show #17 models
> show #14 models
> color #25 #bbbbbbff models
> color #25 #e2ddda7f models
> color #25 #cacacc80 models
> color #25 #a2a2a34d models
> hide #14 models
> hide #15 models
> hide #16 models
> hide #17 models
> hide #18 models
> color #25 #bbbbbbff models
> view orient
> view
> hide #!25 models
> open "/Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Ref_Seven_Guo/Vibrio
> cholerae
> Filament/A2-sheath_sym_2.73A_/sheath_sym_2-73_real_space_refined_025_250211_verify.cif"
Summary of feedback from opening
/Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Ref_Seven_Guo/Vibrio cholerae
Filament/A2-sheath_sym_2.73A_/sheath_sym_2-73_real_space_refined_025_250211_verify.cif
---
warnings | Unknown polymer entity '1' on line 56
Missing or incomplete sequence information. Inferred polymer connectivity.
Chain information for sheath_sym_2-73_real_space_refined_025_250211_verify.cif
#32
---
Chain | Description
A B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g | No description available
> open "/Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Ref_Seven_Guo/Vibrio
> cholerae Filament/A2-sheath_sym_2.73A_/sheath_sym_2.73A.mrc"
Opened sheath_sym_2.73A.mrc as #33, grid size 384,384,384, pixel 1.07, shown
at level 0.173, step 2, values float32
> hide #!33 models
> show #!33 models
> hide #32 models
> show #32 models
> hide #!33 models
> show #!33 models
> show #32 cartoons
Computing secondary structure
> hide #32 atoms
> volume #33 step 1
> surface dust #33 size 10.7
> close #32#33
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J1985_002_volume_map_sharp.mrc
Opened cryosparc_P1_J1985_002_volume_map_sharp.mrc as #32, grid size
360,360,360, pixel 1.07, shown at level 0.0938, step 2, values float32
> volume #32 step 1
> volume #32 level 0.04762
> volume #32 level 0.05122
> surface dust #32 size 10.7
> volume #32 level 0.08
> volume #32 level 0.0644
> volume #32 level 0.08
> volume #32 level 0.1
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J2054_003_volume_map_sharp.mrc
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc as #33, grid size
360,360,360, pixel 1.07, shown at level 0.14, step 2, values float32
> hide #!32 models
> volume #33 step 1
> surface dust #33 size 10.7
> volume #33 level 0.1225
> volume #33 level 0.1
> show #14 models
> hide #14 models
> show #14 models
> show #15 models
> show #16 models
> show #17 models
> show #18 models
> color #33 #99bfe596 models
> color #33 #e2ddda7f models
Alignment identifier is 1
Alignment identifier is 2
Alignment identifier is 16/A
Alignment identifier is 3
> ui mousemode right select
> select #16/A:33
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #16/A:23
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #16/A:23-32
75 atoms, 74 bonds, 10 residues, 1 model selected
> delete atoms sel
> delete bonds sel
> select clear
> select
> #16/A:33-51,55-70,76-87,105-118,121-133,137-150,154-172,176-192,196-208,214-233
1230 atoms, 1231 bonds, 157 residues, 1 model selected
> select clear
> select #33
3 models selected
> select clear
> select #15/B:21
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #15/B:21 #18/B:21
18 atoms, 16 bonds, 2 residues, 2 models selected
> select #15/B:21-29 #18/B:21-29
148 atoms, 148 bonds, 18 residues, 2 models selected
2 [ID: 2] region 2 chains [1-9] RMSD: 102.061
> delete atoms sel
> delete bonds sel
> hide #!33 models
> select #15/B:45
9 atoms, 8 bonds, 1 residue, 1 model selected
> show #!33 models
> select #15/B:46
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #15/B:30 #18/B:30
16 atoms, 14 bonds, 2 residues, 2 models selected
> select #15/B:30-46 #18/B:30-46
250 atoms, 250 bonds, 34 residues, 2 models selected
2 [ID: 2] region 2 chains [10-26] RMSD: 92.567
> delete atoms sel
> delete bonds sel
> hide #!33 models
> show #!33 models
> volume #33 level 0.12
> volume #33 level 0.13
> select #17/A:228
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #14/A:228 #17/A:228
18 atoms, 16 bonds, 2 residues, 2 models selected
> select #14/A:228-236 #17/A:228-236
146 atoms, 146 bonds, 18 residues, 2 models selected
1 [ID: 1] region 2 chains [204-212] RMSD: 65.707
> delete atoms sel
> delete bonds sel
> select #17/A:30
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #14/A:25 #17/A:25
18 atoms, 16 bonds, 2 residues, 2 models selected
> select #14/A:25-30 #17/A:25-30
88 atoms, 86 bonds, 12 residues, 2 models selected
1 [ID: 1] region 2 chains [1-6] RMSD: 25.488
> delete atoms sel
> delete bonds sel
> hide #!33 models
> show #!33 models
> color #33 #bbbbbbff models
> volume #33 level 0.1
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/Td_local.cxs
> includeMaps true
> combine #14 to18
Expected a keyword
> combine #14 to #18
Expected a keyword
> combine #14-18
Remapping chain ID 'A' in AF_FlaAX_TDE2349_J1516map_related.pdb #16 to 'C'
Remapping chain ID 'A' in AF_FlaA2_TDE1408_J1516map_related.pdb #17 to 'D'
Remapping chain ID 'B' in AF_FlaA3_TDE1409_J1516map_related.pdb #18 to 'E'
> combine #14-18
Remapping chain ID 'A' in AF_FlaAX_TDE2349_J1516map_related.pdb #16 to 'C'
Remapping chain ID 'A' in AF_FlaA2_TDE1408_J1516map_related.pdb #17 to 'D'
Remapping chain ID 'B' in AF_FlaA3_TDE1409_J1516map_related.pdb #18 to 'E'
> combine #14-18
Remapping chain ID 'A' in AF_FlaAX_TDE2349_J1516map_related.pdb #16 to 'C'
Remapping chain ID 'A' in AF_FlaA2_TDE1408_J1516map_related.pdb #17 to 'D'
Remapping chain ID 'B' in AF_FlaA3_TDE1409_J1516map_related.pdb #18 to 'E'
> combine #14-18
Remapping chain ID 'A' in AF_FlaAX_TDE2349_J1516map_related.pdb #16 to 'C'
Remapping chain ID 'A' in AF_FlaA2_TDE1408_J1516map_related.pdb #17 to 'D'
Remapping chain ID 'B' in AF_FlaA3_TDE1409_J1516map_related.pdb #18 to 'E'
> hide #14 models
> hide #15 models
> hide #16 models
> hide #17 models
> hide #18 models
> select add #34
8049 atoms, 8252 bonds, 996 residues, 1 model selected
> ui mousemode right "translate selected models"
> view matrix models
> #34,0.85836,0.51286,-0.013572,-70.282,-0.51293,0.85843,-0.0015432,130.7,0.010859,0.0082861,0.99991,19.738
> ui tool show "Fit in Map"
> fitmap #34 inMap #33
Fit molecule combination (#34) to map
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#33) using 8049 atoms
average map value = 0.0864, steps = 72
shifted from previous position = 4.14
rotated from previous position = 1.11 degrees
atoms outside contour = 4857, contour level = 0.1
Position of combination (#34) relative to
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#33) coordinates:
Matrix rotation and translation
0.85024783 0.52625311 -0.01167443 -72.44442952
-0.52637260 0.85015914 -0.01270085 133.19146648
0.00324126 0.01694398 0.99985119 20.04471036
Axis 0.02814876 -0.01416295 -0.99950341
Axis point 197.56523094 192.59895188 0.00000000
Rotation angle (degrees) 31.77428827
Shift along axis -23.96036118
> select subtract #34
Nothing selected
> select add #35
8049 atoms, 8252 bonds, 996 residues, 1 model selected
> select subtract #35
Nothing selected
> select add #36
8049 atoms, 8252 bonds, 996 residues, 1 model selected
> view matrix models
> #36,0.85836,0.51286,-0.013572,-68.733,-0.51293,0.85843,-0.0015432,121.51,0.010859,0.0082861,0.99991,-80.356
> fitmap #36 inMap #33
Fit molecule combination (#36) to map
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#33) using 8049 atoms
average map value = 0.101, steps = 76
shifted from previous position = 3.47
rotated from previous position = 3.12 degrees
atoms outside contour = 4024, contour level = 0.1
Position of combination (#36) relative to
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#33) coordinates:
Matrix rotation and translation
0.87866976 0.47729828 0.01121606 -73.46881450
-0.47742705 0.87833851 0.02418394 109.07659952
0.00169145 -0.02660455 0.99964460 -75.55685283
Axis -0.05311922 0.00996170 -0.99853849
Axis point 178.29614220 190.29787889 0.00000000
Rotation angle (degrees) 28.55886269
Shift along axis 80.43562008
> select subtract #36
Nothing selected
> select add #37
8049 atoms, 8252 bonds, 996 residues, 1 model selected
> view matrix models
> #37,0.85836,0.51286,-0.013572,-69.017,-0.51293,0.85843,-0.0015432,117.78,0.010859,0.0082861,0.99991,-130.75
> fitmap #37 inMap #33
Fit molecule combination (#37) to map
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#33) using 8049 atoms
average map value = 0.08892, steps = 76
shifted from previous position = 5.06
rotated from previous position = 5.2 degrees
atoms outside contour = 4677, contour level = 0.1
Position of combination (#37) relative to
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#33) coordinates:
Matrix rotation and translation
0.89210115 0.45132359 0.02150729 -74.25643546
-0.45183504 0.89100402 0.04423733 95.08438864
0.00080227 -0.04918192 0.99878951 -123.01683269
Axis -0.10286048 0.02279753 -0.99443451
Axis point 162.00548137 173.14599167 0.00000000
Rotation angle (degrees) 27.00746845
Shift along axis 132.13792595
> ui mousemode right select
> select clear
> hide #!33 models
> hide #34 models
> hide #35 models
> hide #36 models
> hide #37 models
> show #!33 models
> hide #!33 models
> show #!32 models
> hide #!32 models
> show #!31 models
> hide #!31 models
> show #!30 models
> hide #!30 models
> show #!28 models
> hide #!28 models
> show #!19 models
> hide #!19 models
> show #!4 models
> view
> view orient
> volume #4 level 0.1
> ui mousemode right distance
> ui mousemode right "tape measure"
> marker segment #38 position 411.3,462.6,551.1 toPosition 520.8,475.3,499.4
> color yellow radius 0.3365 label 121.8 labelHeight 12.18 labelColor yellow
> marker segment #38 position 545.4,562,409.1 toPosition 548.6,451.5,408.6
> color yellow radius 0.3365 label 110.5 labelHeight 11.05 labelColor yellow
> close #38
> view orient
> ui tool show "Side View"
> view
> view orient
> view
> ui mousemode right "tape measure"
> marker segment #38 position 784.6,521.5,409 toPosition 91.5,344,519.9 color
> yellow radius 0.3365 label 724 labelHeight 72.4 labelColor yellow
> marker delete #38
> marker segment #38 position 784.3,513.7,402.3 toPosition 597.1,162.1,449.3
> color yellow radius 0.3365 label 401 labelHeight 40.1 labelColor yellow
> ui mousemode right "tape measure"
> marker segment #38 position 736.2,628.4,416.3 toPosition 121.9,232.9,418.8
> color yellow radius 0.3365 label 730.6 labelHeight 73.06 labelColor yellow
> marker delete #38
> hide #!4 models
> show #14 models
> show #15 models
> show #16 models
> show #17 models
> show #18 models
> show #14-18 cartoons
> show #14-18 surfaces
> lighting full
> graphics silhouettes false
> lighting flat
> lighting full
> lighting soft
> lighting simple
> graphics silhouettes false
> lighting full
> lighting simple
> lighting full
> lighting flat
> lighting simple
> lighting flat
> lighting full
> lighting soft
> lighting flat
> lighting soft
> lighting flat
> lighting full
> lighting simple
> lighting full
> graphics silhouettes false
> show #!29 models
> show #29.3,9,12,14,18,27,30,32#!14-18 surfaces
> close #1-3
> show #!4 models
> hide #!4 models
> close #4-5
> show #!6 models
> hide #!6 models
> show #!6-7 target m
> show target m
> hide #!6 models
> hide target m
> show #!6 models
> hide #!6 models
> show #!6 models
> show #!6 target m
> hide #!6 models
> hide #34-37#!6-33 target m
> show #!6 models
> show #6.1 models
> close #6
> show #!7 models
> show #7.1 models
> close #7
> show #!8 models
> hide #!8 models
> close #8-9
> show #!10 models
> show #10.1 models
> close #10
> show #!11 models
> show #11.1 models
> close #11
> show #!12 models
> show #12.1 models
> close #12
> show #!13 models
> show #13.1 models
> close #13
> show #!14-18 target m
> show #14.1 models
> show #15.1 models
> show #16.1 models
> show #17.1 models
> show #18.1 models
> show #!19 models
> show #!19.1 models
> show #!19.2 models
> show #19.1.1 models
> close #19.1#19-23#19.2
> show #!24 models
> show #24.1 models
> close #24
> show #!25 models
> show #25.1 models
> show #!26 models
> show #26.1 models
> show #!27 models
> show #27.1 models
> show #!28 models
> show #28.1 models
> close #25-28
> show #!29 models
> show #!29.3 models
> show #!29.9 models
> show #!29.12 models
> show #!29.14 models
> show #!29.18 models
> show #!29.27 models
> show #!29.30 models
> show #!29.32 models
> show #!30 models
> show #30.1 models
> hide #!30.1 models
> close #30
> show #!31 models
> show #31.1 models
> hide #!31.1 models
> close #31
> show #!32 models
> show #32.1 models
> hide #!32.1 models
> close #32
> show #!33 models
> show #33.1 models
> show #34 models
> show #35 models
> show #36 models
> show #37 models
> hide #!33 models
> hide #!14 models
> hide #!15 models
> hide #!16 models
> hide #!17 models
> hide #!18 models
> show #!33 models
> hide #!33 models
> show #!33 models
> hide #!33 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J2063/cryosparc_P1_J2063_map_aligned_0.mrc
Opened cryosparc_P1_J2063_map_aligned_0.mrc as #1, grid size 360,360,360,
pixel 1.07, shown at level 0.081, step 2, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J2063/cryosparc_P1_J2063_map_aligned_1.mrc
Opened cryosparc_P1_J2063_map_aligned_1.mrc as #2, grid size 360,360,360,
pixel 1.07, shown at level 0.088, step 2, values float32
> hide #!29 models
> show #!33 models
> hide #!33 models
> hide #34 models
> hide #35 models
> hide #36 models
> hide #37 models
> volume #1 step 1
> volume #2 step 1
> volume #1 level 0.06755
> volume #2 level 0.0636
> volume #1 level 0.05968
> hide #!1 models
> show #!2 models
> show #!33 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J2062/cryosparc_P1_J2062_map_aligned_0.mrc
Opened cryosparc_P1_J2062_map_aligned_0.mrc as #3, grid size 360,360,360,
pixel 1.07, shown at level 0.0875, step 2, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J2062/cryosparc_P1_J2062_map_aligned_1.mrc
Opened cryosparc_P1_J2062_map_aligned_1.mrc as #4, grid size 360,360,360,
pixel 1.07, shown at level 0.0868, step 2, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J2062/cryosparc_P1_J2062_map_aligned_2.mrc
Opened cryosparc_P1_J2062_map_aligned_2.mrc as #5, grid size 360,360,360,
pixel 1.07, shown at level 0.0951, step 2, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Alignment/J2062/cryosparc_P1_J2062_map_aligned_3.mrc
Opened cryosparc_P1_J2062_map_aligned_3.mrc as #6, grid size 360,360,360,
pixel 1.07, shown at level 0.0906, step 2, values float32
> hide #!2 models
> hide #!33 models
> show #!33 models
> volume #3 step 1
> volume #4 step 1
> volume #5 step 1
> volume #6 step 1
> close #1
> surface dust #33 size 10.7
> surface dust #3 size 10.7
> surface dust #4 size 10.7
> surface dust #5 size 10.7
> surface dust #6 size 10.7
> hide #!33 models
> volume #3 level 0.06304
> volume #4 level 0.06329
> hide #!3 models
> show #!3 models
> hide #!3 models
> hide #!4 models
> volume #5 level 0.07038
> hide #!5 models
> hide #!6 models
> show #!6 models
> volume #6 level 0.0707
> show #!3 models
> hide #!6 models
> show #!6 models
> hide #!3 models
> show #!4 models
> hide #!6 models
> volume #4 level 0.05309
> hide #!4 models
> show #!3 models
> show #!5 models
> show #!6 models
> show #!33 models
> view orient
> hide #!5 models
> hide #!6 models
> hide #!3 models
> show #!4 models
> hide #!4 models
> show #!5 models
> view orient
> volume #5 level 0.06438
> hide #!5 models
> show #!6 models
> view orient
> close #2-6
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/250202_Real_space_refine_Td_FlaB3_del/J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc as #1, grid size
360,360,360, pixel 1.07, shown at level 0.492, step 2, values float32
> rename #33 id #2
> show #34 models
> show #35 models
> show #36 models
> show #37 models
> hide #!2 models
> volume #1 step 1
> ui tool show "Volume Viewer"
> hide #!1 models
> volume #1 level 0.1562
> surface dust #1 size 10.7
> surface dust #2 size 10.7
> select add #1
2 models selected
> ui mousemode right "translate selected models"
> select add #2
4 models selected
> select subtract #1
2 models selected
> select subtract #2
Nothing selected
> fitmap #1 inMap #2
Fit map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc in map
cryosparc_P1_J2054_003_volume_map_sharp.mrc using 1310430 points
correlation = 0.8342, correlation about mean = 0.3897, overlap = 6.532e+04
steps = 68, shift = 1.37, angle = 1.74 degrees
Position of J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) relative to
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
0.99960082 -0.02511298 0.01294385 1.69871101
0.02496959 0.99962633 0.01112321 -5.98334997
-0.01321835 -0.01079557 0.99985435 3.96883651
Axis -0.36165679 0.43167260 0.82635533
Axis point 242.02373634 64.98334395 0.00000000
Rotation angle (degrees) 1.73651638
Shift along axis 0.08247055
> hide #!1 models
> combine #34-37
Remapping chain ID 'A' in combination #35 to 'F'
Remapping chain ID 'B' in combination #35 to 'G'
Remapping chain ID 'C' in combination #35 to 'H'
Remapping chain ID 'D' in combination #35 to 'I'
Remapping chain ID 'E' in combination #35 to 'J'
Remapping chain ID 'A' in combination #36 to 'K'
Remapping chain ID 'B' in combination #36 to 'L'
Remapping chain ID 'C' in combination #36 to 'M'
Remapping chain ID 'D' in combination #36 to 'N'
Remapping chain ID 'E' in combination #36 to 'O'
Remapping chain ID 'A' in combination #37 to 'P'
Remapping chain ID 'B' in combination #37 to 'Q'
Remapping chain ID 'C' in combination #37 to 'R'
Remapping chain ID 'D' in combination #37 to 'S'
Remapping chain ID 'E' in combination #37 to 'T'
> rename #3 Asym_part_model
> rename #3 Asym_part_model.pdb
> ui tool show "Surface Zone"
> volume zone #2 nearAtoms #3 range 3 invert false newMap true minimalBounds
> true bondPointSpacing 2
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone as #4, grid size
144,95,226, pixel 1.07, shown at step 1, values float32
> volume zone #2 nearAtoms #3 range 5 invert false newMap true minimalBounds
> true bondPointSpacing 2
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone as #5, grid size
148,99,230, pixel 1.07, shown at step 1, values float32
> hide #!4 models
> show #!4 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> close #5
> surface dust #4 size 10.7
> volume #4 level 0.09848
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/WT_FlaB1_map_related_model-
> nosheath.pdb
Chain information for WT_FlaB1_map_related_model-nosheath.pdb #5
---
Chain | Description
A | No description available
> close #5
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaB1_real_space_refined-1.pdb
Chain information for FlaB1_real_space_refined-1.pdb #5
---
Chain | Description
B | No description available
> close #5
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaB1_core_monox33_real_refine.pdb
Chain information for FlaB1_core_monox33_real_refine.pdb #5
---
Chain | Description
B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h | No description available
> show #!2 models
> hide #!2 models
> show #!1 models
> hide #!1 models
> hide #34 models
> hide #35 models
> hide #36 models
> hide #37 models
> hide #!4 models
> show #!2 models
> hide #3,5 atoms
> show #3,5 cartoons
> color #2 #e2ddda7f models
> show #!1 models
> hide #!2 models
> hide #!1 models
> hide #5 models
> close #5
> show #!2 models
> hide #3 models
> hide #!2 models
> show #3 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaB1_core_monox33_real_refine.pdb
Chain information for FlaB1_core_monox33_real_refine.pdb #5
---
Chain | Description
B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h | No description available
> hide #3,5 atoms
> show #3,5 cartoons
> hide #3 models
> show #!2 models
> color #2 #bbbbbbff models
> hide #!2 models
> show #!1 models
> volume #1 level 0.2717
> volume #1 level 0.324
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc
Opened WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc as #6, grid size 360,360,360,
pixel 1.07, shown at level 0.421, step 2, values float32
> hide #!1 models
> volume #6 step 1
> surface dust #6 size 10.7
> select add #6
2 models selected
> select add #5
72006 atoms, 72435 bonds, 9438 residues, 3 models selected
> show #!1 models
> hide #5 models
> hide #!6 models
> show #!6 models
> select subtract #6
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> select subtract #5
Nothing selected
> hide #!1 models
> show #!1 models
> hide #!6 models
> show #!6 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!6 models
> volume #1 level 0.2146
> show #!6 models
> hide #!1 models
> volume #6 level 0.2886
> hide #!6 models
> show #!1 models
> show #!6 models
> hide #!1 models
> show #!14 models
> hide #!14 models
> show #5 models
> select add #5
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> select add #6
72006 atoms, 72435 bonds, 9438 residues, 3 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #5,0.30125,0.95296,0.033532,-54.681,0.95303,-0.29973,-0.043617,74.174,-0.031514,0.045096,-0.99849,379.66,#6,0.30125,0.95296,0.033532,-54.681,0.95303,-0.29973,-0.043617,74.174,-0.031514,0.045096,-0.99849,379.66
> select add #6
72006 atoms, 72435 bonds, 9438 residues, 4 models selected
> select subtract #6
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> select subtract #5
Nothing selected
> show #!1 models
> hide #5 models
> show #5 models
> select add #5
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> select add #6
72006 atoms, 72435 bonds, 9438 residues, 4 models selected
> view matrix models
> #5,0.073911,0.99647,0.039713,-20.693,0.9945,-0.070687,-0.077229,28.95,-0.07415,0.045203,-0.99622,387.36,#6,0.073911,0.99647,0.039713,-20.693,0.9945,-0.070687,-0.077229,28.95,-0.07415,0.045203,-0.99622,387.36
> ui mousemode right "translate selected models"
> view matrix models
> #5,0.073911,0.99647,0.039713,-22.689,0.9945,-0.070687,-0.077229,29.355,-0.07415,0.045203,-0.99622,399.73,#6,0.073911,0.99647,0.039713,-22.689,0.9945,-0.070687,-0.077229,29.355,-0.07415,0.045203,-0.99622,399.73
> select subtract #6
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> select subtract #5
Nothing selected
> fitmap #6 inMap #1
Fit map WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc in map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc using 712592 points
correlation = 0.787, correlation about mean = 0.3528, overlap = 1.699e+05
steps = 108, shift = 6.21, angle = 5.37 degrees
Position of WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
0.15059908 0.98845196 0.01681237 -31.03545300
0.98858724 -0.15064320 0.00138226 30.22882149
0.00389896 0.01641233 -0.99985771 397.82795122
Axis 0.75847802 0.65166286 0.00682705
Axis point 0.00000000 27.14753288 199.15476673
Rotation angle (degrees) 179.43230160
Shift along axis -1.12471785
> fitmap #5 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#5) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.2181, steps = 96
shifted from previous position = 0.904
rotated from previous position = 4.86 degrees
atoms outside contour = 50793, contour level = 0.28858
Position of FlaB1_core_monox33_real_refine.pdb (#5) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.99981037 0.01947344 0.00012250 -3.75486251
-0.01947329 0.99980975 -0.00112089 4.04724758
-0.00014431 0.00111829 0.99999936 5.35638304
Axis 0.05739713 0.00683909 -0.99832800
Axis point 208.03562598 178.53058064 0.00000000
Rotation angle (degrees) 1.11768116
Shift along axis -5.53526602
> hide #!1 models
> color #6 #e2ddda7f models
> color #6 #9bccffff models
> preset "overall look" interactive
Using preset: Overall Look / Interactive
> set bgColor transparent
Preset expands to these ChimeraX commands:
~set bg
graphics silhouettes f
lighting depthCue t
> color #6 #bbbbbbff models
> color #6 #cacacc80 models
> select add #5
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> view matrix models
> #5,0.10642,0.99432,0.0027324,-21.86,0.99428,-0.10639,-0.0090576,24.114,-0.0087155,0.0036807,-0.99996,402.26
> fitmap #5 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#5) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.4794, steps = 52
shifted from previous position = 0.632
rotated from previous position = 1.12 degrees
atoms outside contour = 27842, contour level = 0.28858
Position of FlaB1_core_monox33_real_refine.pdb (#5) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
1.00000000 0.00001603 0.00004721 0.03143148
-0.00001602 1.00000000 -0.00006028 0.03242751
-0.00004721 0.00006028 1.00000000 0.02029151
Axis 0.77058485 0.60352032 -0.20484679
Axis point 0.00000000 -471.32718152 141.14884957
Rotation angle (degrees) 0.00448183
Shift along axis 0.03963464
> fitmap #5 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#5) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.4794, steps = 28
shifted from previous position = 0.000852
rotated from previous position = 0.00727 degrees
atoms outside contour = 27834, contour level = 0.28858
Position of FlaB1_core_monox33_real_refine.pdb (#5) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
1.00000000 0.00001296 0.00002146 0.03752378
-0.00001296 1.00000000 0.00006387 0.00791065
-0.00002146 -0.00006387 1.00000000 0.03854631
Axis -0.93087848 0.31269529 -0.18890982
Axis point 0.00000000 485.96868363 -318.37846794
Rotation angle (degrees) 0.00393137
Shift along axis -0.03973823
> fitmap #5 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#5) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.4794, steps = 28
shifted from previous position = 0.00345
rotated from previous position = 0.00188 degrees
atoms outside contour = 27830, contour level = 0.28858
Position of FlaB1_core_monox33_real_refine.pdb (#5) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
1.00000000 0.00001342 0.00004242 0.03457351
-0.00001342 1.00000000 0.00003870 0.01362994
-0.00004242 -0.00003870 1.00000000 0.03459421
Axis -0.65627828 0.71939303 -0.22753569
Axis point 704.16192718 -0.00000000 -493.86200309
Rotation angle (degrees) 0.00337874
Shift along axis -0.02075598
> select subtract #5
Nothing selected
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/FlaB1_core_monox33_Asym_map_related.pdb
> models #5
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/FlaB1_core_monox33_Asym_map_related.pdb
Chain information for FlaB1_core_monox33_Asym_map_related.pdb #7
---
Chain | Description
B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h | No description available
> hide #5,7 cartoons
> show #5,7 cartoons
> hide #5,7 atoms
> select add #7
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> color #6 #cacaccd8 models
> color #6 #cacaccbf models
> color #6 #bbbbbbff models
> lighting soft
> lighting flat
> lighting full
> view matrix models #7,1,0,0,-2.5355,0,1,0,3.1225,0,0,1,91.101
> view matrix models #7,1,0,0,1.3205,0,1,0,3.4718,0,0,1,156.5
> select subtract #7
Nothing selected
> hide #!6 models
> show #!6 models
> select add #7
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> view matrix models #7,1,0,0,1.4197,0,1,0,2.1336,0,0,1,104.29
> view matrix models #7,1,0,0,1.3843,0,1,0,2.6563,0,0,1,124.73
> view matrix models #7,1,0,0,3.1347,0,1,0,2.2631,0,0,1,132.34
> fitmap #7 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#7) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.1254, steps = 212
shifted from previous position = 4.39
rotated from previous position = 4.05 degrees
atoms outside contour = 62230, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#7) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.05550497 0.99842240 -0.00847874 -8.88964916
0.99845790 -0.05549436 0.00148195 12.10961839
0.00100908 -0.00854792 -0.99996295 272.27452413
Axis -0.72646209 -0.68720173 0.00257100
Axis point 0.00000000 10.90626035 136.09466305
Rotation angle (degrees) 179.60447092
Shift along axis -1.16374034
> view matrix models
> #7,0.99751,0.070479,-0.0034249,-10.546,-0.070477,0.99751,0.00072234,13.741,0.0034673,-0.00047916,0.99999,111.79
> fitmap #7 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#7) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.1969, steps = 96
shifted from previous position = 3.43
rotated from previous position = 0.348 degrees
atoms outside contour = 54951, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#7) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.04982283 0.99872012 -0.00870579 -7.80566248
0.99875327 -0.04979369 0.00353249 10.65322815
0.00309447 -0.00887094 -0.99995586 292.20655313
Axis -0.72450187 -0.68927011 0.00193663
Axis point 0.00000000 9.90278020 146.06366062
Rotation angle (degrees) 179.50954382
Shift along axis -1.12183758
> hide #!6 models
> select subtract #7
Nothing selected
> hide #5 models
> show #5 models
> hide #7 models
> show #7 models
> hide #7 models
> show #7 models
> select add #7
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> view matrix models
> #7,0.99709,0.07617,-0.0014192,-14.839,-0.07617,0.99709,0.00023923,15.484,0.0014333,-0.00013043,1,104.19
> show #!6 models
> fitmap #7 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#7) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.3449, steps = 128
shifted from previous position = 0.808
rotated from previous position = 1.54 degrees
atoms outside contour = 41044, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#7) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.07662568 0.99702360 -0.00851071 -12.64926972
0.99705375 -0.07659236 0.00417486 15.97651055
0.00351058 -0.00880554 -0.99995506 297.54579744
Axis -0.73369207 -0.67947998 0.00170411
Axis point 0.00000000 14.74244936 148.71223904
Rotation angle (degrees) 179.49315771
Shift along axis -1.06800039
> hide #!6 models
> select subtract #7
Nothing selected
> show #!6 models
> hide #!6 models
> hide #7 models
> show #7 models
> hide #7 models
> show #7 models
> hide #7 models
> show #7 models
> hide #7 models
> show #7 models
> hide #5 models
> show #5 models
> hide #7 models
> show #7 models
> hide #5 models
> show #5 models
> hide #5 models
> show #5 models
> hide #5 models
> show #5 models
> hide #7 models
> show #7 models
> hide #7 models
> show #7 models
> ui mousemode right select
> select #7/B:195
5 atoms, 4 bonds, 1 residue, 1 model selected
> select clear
> split #5
Split FlaB1_core_monox33_real_refine.pdb (#5) into 33 models
Chain information for FlaB1_core_monox33_real_refine.pdb B #5.1
---
Chain | Description
B | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb C #5.2
---
Chain | Description
C | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb D #5.3
---
Chain | Description
D | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb E #5.4
---
Chain | Description
E | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb F #5.5
---
Chain | Description
F | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb G #5.6
---
Chain | Description
G | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb H #5.7
---
Chain | Description
H | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb I #5.8
---
Chain | Description
I | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb J #5.9
---
Chain | Description
J | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb K #5.10
---
Chain | Description
K | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb L #5.11
---
Chain | Description
L | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb M #5.12
---
Chain | Description
M | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb N #5.13
---
Chain | Description
N | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb O #5.14
---
Chain | Description
O | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb P #5.15
---
Chain | Description
P | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Q #5.16
---
Chain | Description
Q | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb R #5.17
---
Chain | Description
R | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb S #5.18
---
Chain | Description
S | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb T #5.19
---
Chain | Description
T | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb U #5.20
---
Chain | Description
U | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb V #5.21
---
Chain | Description
V | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb W #5.22
---
Chain | Description
W | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb X #5.23
---
Chain | Description
X | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Y #5.24
---
Chain | Description
Y | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Z #5.25
---
Chain | Description
Z | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb a #5.26
---
Chain | Description
a | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb b #5.27
---
Chain | Description
b | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb c #5.28
---
Chain | Description
c | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb d #5.29
---
Chain | Description
d | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb e #5.30
---
Chain | Description
e | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb f #5.31
---
Chain | Description
f | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb g #5.32
---
Chain | Description
g | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb h #5.33
---
Chain | Description
h | No description available
> split #7
Split FlaB1_core_monox33_Asym_map_related.pdb (#7) into 33 models
Chain information for FlaB1_core_monox33_Asym_map_related.pdb B #7.1
---
Chain | Description
B | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb C #7.2
---
Chain | Description
C | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb D #7.3
---
Chain | Description
D | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb E #7.4
---
Chain | Description
E | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb F #7.5
---
Chain | Description
F | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb G #7.6
---
Chain | Description
G | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb H #7.7
---
Chain | Description
H | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb I #7.8
---
Chain | Description
I | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb J #7.9
---
Chain | Description
J | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb K #7.10
---
Chain | Description
K | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb L #7.11
---
Chain | Description
L | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb M #7.12
---
Chain | Description
M | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb N #7.13
---
Chain | Description
N | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb O #7.14
---
Chain | Description
O | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb P #7.15
---
Chain | Description
P | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Q #7.16
---
Chain | Description
Q | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb R #7.17
---
Chain | Description
R | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb S #7.18
---
Chain | Description
S | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb T #7.19
---
Chain | Description
T | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb U #7.20
---
Chain | Description
U | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb V #7.21
---
Chain | Description
V | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb W #7.22
---
Chain | Description
W | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb X #7.23
---
Chain | Description
X | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Y #7.24
---
Chain | Description
Y | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Z #7.25
---
Chain | Description
Z | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb a #7.26
---
Chain | Description
a | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb b #7.27
---
Chain | Description
b | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb c #7.28
---
Chain | Description
c | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb d #7.29
---
Chain | Description
d | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb e #7.30
---
Chain | Description
e | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb f #7.31
---
Chain | Description
f | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb g #7.32
---
Chain | Description
g | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb h #7.33
---
Chain | Description
h | No description available
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select #7.30/e:202
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #7.26/a:220
19 atoms, 18 bonds, 2 residues, 2 models selected
> select add #7.23/X:55
28 atoms, 26 bonds, 3 residues, 3 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.24/Y:198
39 atoms, 36 bonds, 4 residues, 4 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.20/U:115
45 atoms, 41 bonds, 5 residues, 5 models selected
> hide #!7 models
> show #!7 models
> select add #7.17/R:213
54 atoms, 49 bonds, 6 residues, 6 models selected
> hide #!7 models
> show #!7 models
> select add #7.18/S:108
62 atoms, 56 bonds, 7 residues, 7 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.14/O:205
71 atoms, 64 bonds, 8 residues, 8 models selected
> hide #!7 models
> show #!7 models
> select add #7.11/L:180
82 atoms, 74 bonds, 9 residues, 9 models selected
> hide #!7 models
> show #!7 models
> select add #7.8/I:220
94 atoms, 86 bonds, 10 residues, 10 models selected
> hide #!7 models
> show #!7 models
> select add #7.9/J:111
103 atoms, 94 bonds, 11 residues, 11 models selected
> select add #7.5/F:62
108 atoms, 98 bonds, 12 residues, 12 models selected
> select add #7.4/E:198
119 atoms, 108 bonds, 13 residues, 13 models selected
> select clear
> select #7.20/U:119
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #7.19/T:122
13 atoms, 11 bonds, 2 residues, 2 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.18/S:206
17 atoms, 14 bonds, 3 residues, 3 models selected
> select add #7.17/R:175
22 atoms, 18 bonds, 4 residues, 4 models selected
> hide #!7 models
> show #!7 models
> select add #7.14/O:94
27 atoms, 22 bonds, 5 residues, 5 models selected
> select add #7.13/N:80
35 atoms, 29 bonds, 6 residues, 6 models selected
> hide #!7 models
> show #!7 models
> select add #7.11/L:209
44 atoms, 37 bonds, 7 residues, 7 models selected
> select add #7.10/K:154
58 atoms, 52 bonds, 8 residues, 8 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.9/J:94
63 atoms, 56 bonds, 9 residues, 9 models selected
> select add #7.8/I:119
68 atoms, 60 bonds, 10 residues, 10 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.4/E:206
72 atoms, 63 bonds, 11 residues, 11 models selected
> select add #7.5/F:205
81 atoms, 71 bonds, 12 residues, 12 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.3/D:195
86 atoms, 75 bonds, 13 residues, 13 models selected
> select add #7.2/C:206
90 atoms, 78 bonds, 14 residues, 14 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.32/g:119
95 atoms, 82 bonds, 15 residues, 15 models selected
> select add #7.31/f:122
103 atoms, 89 bonds, 16 residues, 16 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.30/e:115
109 atoms, 94 bonds, 17 residues, 17 models selected
> select add #7.29/d:122
117 atoms, 101 bonds, 18 residues, 18 models selected
> hide #!7 models
> show #!7 models
> select add #7.26/a:176
122 atoms, 105 bonds, 19 residues, 19 models selected
> select add #7.25/Z:122
130 atoms, 112 bonds, 20 residues, 20 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> select add #7.24/Y:198
141 atoms, 122 bonds, 21 residues, 21 models selected
> select add #7.23/X:118
148 atoms, 128 bonds, 22 residues, 22 models selected
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!5 models
> select add #7.1
2330 atoms, 2323 bonds, 308 residues, 23 models selected
> select add #7.6
4512 atoms, 4518 bonds, 594 residues, 24 models selected
> select add #7.7
6694 atoms, 6713 bonds, 880 residues, 25 models selected
> select add #7.12
8876 atoms, 8908 bonds, 1166 residues, 26 models selected
> select add #7.15
11058 atoms, 11103 bonds, 1452 residues, 27 models selected
> select add #7.16
13240 atoms, 13298 bonds, 1738 residues, 28 models selected
> select add #7.21
15422 atoms, 15493 bonds, 2024 residues, 29 models selected
> select add #7.22
17604 atoms, 17688 bonds, 2310 residues, 30 models selected
> select add #7.27
19786 atoms, 19883 bonds, 2596 residues, 31 models selected
> select add #7.28
21968 atoms, 22078 bonds, 2882 residues, 32 models selected
> select add #7.33
24150 atoms, 24273 bonds, 3168 residues, 33 models selected
> select add #7.32
26327 atoms, 26464 bonds, 3453 residues, 33 models selected
> select subtract #7.32
24145 atoms, 24269 bonds, 3167 residues, 32 models selected
> select add #7.31
26319 atoms, 26457 bonds, 3452 residues, 32 models selected
> select subtract #7.31
24137 atoms, 24262 bonds, 3166 residues, 31 models selected
> select add #7.30
26313 atoms, 26452 bonds, 3451 residues, 31 models selected
> select subtract #7.30
24131 atoms, 24257 bonds, 3165 residues, 30 models selected
> select add #7.29
26305 atoms, 26445 bonds, 3450 residues, 30 models selected
> select subtract #7.29
24123 atoms, 24250 bonds, 3164 residues, 29 models selected
> select add #7.26
26300 atoms, 26441 bonds, 3449 residues, 29 models selected
> select subtract #7.26
24118 atoms, 24246 bonds, 3163 residues, 28 models selected
> select add #7.25
26292 atoms, 26434 bonds, 3448 residues, 28 models selected
> select subtract #7.25
24110 atoms, 24239 bonds, 3162 residues, 27 models selected
> select add #7.24
26281 atoms, 26424 bonds, 3447 residues, 27 models selected
> select subtract #7.24
24099 atoms, 24229 bonds, 3161 residues, 26 models selected
> select add #7.23
26274 atoms, 26418 bonds, 3446 residues, 26 models selected
> select subtract #7.23
24092 atoms, 24223 bonds, 3160 residues, 25 models selected
> select add #7.20
26269 atoms, 26414 bonds, 3445 residues, 25 models selected
> select subtract #7.20
24087 atoms, 24219 bonds, 3159 residues, 24 models selected
> select add #7.19
26261 atoms, 26407 bonds, 3444 residues, 24 models selected
> select subtract #7.19
24079 atoms, 24212 bonds, 3158 residues, 23 models selected
> select add #7.18
26257 atoms, 26404 bonds, 3443 residues, 23 models selected
> select subtract #7.18
24075 atoms, 24209 bonds, 3157 residues, 22 models selected
> select add #7.17
26252 atoms, 26400 bonds, 3442 residues, 22 models selected
> select subtract #7.17
24070 atoms, 24205 bonds, 3156 residues, 21 models selected
> select add #7.14
26247 atoms, 26396 bonds, 3441 residues, 21 models selected
> select subtract #7.14
24065 atoms, 24201 bonds, 3155 residues, 20 models selected
> select add #7.13
26239 atoms, 26389 bonds, 3440 residues, 20 models selected
> select subtract #7.13
24057 atoms, 24194 bonds, 3154 residues, 19 models selected
> select add #7.11
26230 atoms, 26381 bonds, 3439 residues, 19 models selected
> select subtract #7.11
24048 atoms, 24186 bonds, 3153 residues, 18 models selected
> select add #7.10
26216 atoms, 26366 bonds, 3438 residues, 18 models selected
> select subtract #7.10
24034 atoms, 24171 bonds, 3152 residues, 17 models selected
> select add #7.9
26211 atoms, 26362 bonds, 3437 residues, 17 models selected
> select subtract #7.9
24029 atoms, 24167 bonds, 3151 residues, 16 models selected
> select add #7.8
26206 atoms, 26358 bonds, 3436 residues, 16 models selected
> select subtract #7.8
24024 atoms, 24163 bonds, 3150 residues, 15 models selected
> select add #7.5
26197 atoms, 26350 bonds, 3435 residues, 15 models selected
> select subtract #7.5
24015 atoms, 24155 bonds, 3149 residues, 14 models selected
> select add #7.4
26193 atoms, 26347 bonds, 3434 residues, 14 models selected
> select subtract #7.4
24011 atoms, 24152 bonds, 3148 residues, 13 models selected
> select add #7.3
26188 atoms, 26343 bonds, 3433 residues, 13 models selected
> select subtract #7.3
24006 atoms, 24148 bonds, 3147 residues, 12 models selected
> select add #7.2
26184 atoms, 26340 bonds, 3432 residues, 12 models selected
> select subtract #7.2
24002 atoms, 24145 bonds, 3146 residues, 11 models selected
> show sel surfaces
> delete atoms (#!7.1,6-7,12,15-16,21-22,27-28,33 & sel)
> delete bonds (#!7.1,6-7,12,15-16,21-22,27-28,33 & sel)
> show #!5 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!5 models
> show #!5 models
> show #!6 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/FlaB1_core_monox33_Asym_map_related.pdb
Chain information for FlaB1_core_monox33_Asym_map_related.pdb #8
---
Chain | Description
B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h | No description available
> hide #8#5.1-33#7.2-5,8-11,13-14,17-20,23-26,29-32 atoms
> show #8#5.1-33#7.2-5,8-11,13-14,17-20,23-26,29-32 cartoons
> split #8
Split FlaB1_core_monox33_Asym_map_related.pdb (#8) into 33 models
Chain information for FlaB1_core_monox33_Asym_map_related.pdb B #8.1
---
Chain | Description
B | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb C #8.2
---
Chain | Description
C | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb D #8.3
---
Chain | Description
D | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb E #8.4
---
Chain | Description
E | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb F #8.5
---
Chain | Description
F | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb G #8.6
---
Chain | Description
G | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb H #8.7
---
Chain | Description
H | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb I #8.8
---
Chain | Description
I | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb J #8.9
---
Chain | Description
J | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb K #8.10
---
Chain | Description
K | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb L #8.11
---
Chain | Description
L | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb M #8.12
---
Chain | Description
M | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb N #8.13
---
Chain | Description
N | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb O #8.14
---
Chain | Description
O | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb P #8.15
---
Chain | Description
P | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Q #8.16
---
Chain | Description
Q | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb R #8.17
---
Chain | Description
R | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb S #8.18
---
Chain | Description
S | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb T #8.19
---
Chain | Description
T | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb U #8.20
---
Chain | Description
U | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb V #8.21
---
Chain | Description
V | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb W #8.22
---
Chain | Description
W | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb X #8.23
---
Chain | Description
X | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Y #8.24
---
Chain | Description
Y | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Z #8.25
---
Chain | Description
Z | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb a #8.26
---
Chain | Description
a | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb b #8.27
---
Chain | Description
b | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb c #8.28
---
Chain | Description
c | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb d #8.29
---
Chain | Description
d | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb e #8.30
---
Chain | Description
e | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb f #8.31
---
Chain | Description
f | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb g #8.32
---
Chain | Description
g | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb h #8.33
---
Chain | Description
h | No description available
> hide #!8 models
> show #!8 models
> select add #8
72006 atoms, 72435 bonds, 9438 residues, 34 models selected
> ui mousemode right "translate selected models"
> view matrix models #8,1,0,0,-0.54674,0,1,0,-0.28934,0,0,1,-86.116
> hide #!6 models
> select subtract #8
Nothing selected
> hide #!7 models
> select add #8
72006 atoms, 72435 bonds, 9438 residues, 34 models selected
> view matrix models #8,1,0,0,-0.87915,0,1,0,-0.2928,0,0,1,-104.78
> show #!6 models
> hide #!5 models
> select subtract #8
Nothing selected
> combine #8
> hide #!8 models
> fitmap #9 inMap #6
Fit molecule combination (#9) to map WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc
(#6) using 72006 atoms
average map value = 0.3277, steps = 160
shifted from previous position = 1.45
rotated from previous position = 2.8 degrees
atoms outside contour = 43430, contour level = 0.28858
Position of combination (#9) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.17406976 0.98469319 -0.00888917 -28.74800234
0.98472499 -0.17402408 0.00568397 36.81119434
0.00405003 -0.00974280 -0.99994433 506.83488443
Axis -0.76617532 -0.64262966 0.00157930
Axis point 0.00000000 32.12676592 253.26863864
Rotation angle (degrees) 179.42317144
Shift along axis -0.82951197
> close #8
> rename #9 FlaB1_core_monox33_Asym_map_related.pdb
> hide #!6 models
> show #!7 models
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #9 models
> show #9 models
> hide #9 models
> show #9 models
> hide #9 models
> show #9 models
> hide #9 models
> show #9 models
> hide #9 models
> show #9 models
> select add #9
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> view matrix models
> #9,0.99881,-0.04884,0.00069214,14.579,0.048841,0.99881,-0.00021329,-8.3884,-0.0006809,0.00024684,1,-53.165
> show #!6 models
> hide #!6 models
> view matrix models
> #9,0.99881,-0.04884,0.00069214,15.382,0.048841,0.99881,-0.00021329,-8.4768,-0.0006809,0.00024684,1,-104.6
> view matrix models
> #9,0.99881,-0.04884,0.00069214,15.368,0.048841,0.99881,-0.00021329,-9.1625,-0.0006809,0.00024684,1,-103.28
> fitmap #9 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#9) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.3277, steps = 100
shifted from previous position = 5.66
rotated from previous position = 0.00158 degrees
atoms outside contour = 43429, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#9) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.17406903 0.98469347 -0.00887256 -28.75159503
0.98472520 -0.17402363 0.00566197 36.81450684
0.00403126 -0.00972261 -0.99994460 506.82169387
Axis -0.76617512 -0.64262990 0.00158000
Axis point 0.00000000 32.12534036 253.26233945
Rotation angle (degrees) 179.42474891
Shift along axis -0.82856591
> fitmap #9 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#9) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.3277, steps = 84
shifted from previous position = 0.0196
rotated from previous position = 0.00156 degrees
atoms outside contour = 43433, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#9) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.17406440 0.98469408 -0.00889521 -28.73875896
0.98472609 -0.17401904 0.00564757 36.81923409
0.00401319 -0.00974239 -0.99994448 506.84689683
Axis -0.76617361 -0.64263167 0.00159329
Axis point 0.00000000 32.12304845 253.27466036
Rotation angle (degrees) 179.42454642
Shift along axis -0.83477146
> fitmap #9 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#9) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.3277, steps = 64
shifted from previous position = 0.0217
rotated from previous position = 0.00194 degrees
atoms outside contour = 43439, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#9) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.17404873 0.98469712 -0.00886533 -28.75275299
0.98472883 -0.17400348 0.00564835 36.80771672
0.00401931 -0.00971304 -0.99994474 506.82264269
Axis -0.76616852 -0.64263777 0.00158156
Axis point 0.00000000 32.12021128 253.26297098
Rotation angle (degrees) 179.42561112
Shift along axis -0.82300694
> fitmap #9 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#9) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.3277, steps = 64
shifted from previous position = 0.0171
rotated from previous position = 0.00618 degrees
atoms outside contour = 43432, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#9) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.17405506 0.98469688 -0.00876743 -28.77371103
0.98472746 -0.17400978 0.00569303 36.80340370
0.00408029 -0.00962443 -0.99994535 506.81076909
Axis -0.76617062 -0.64263538 0.00152971
Axis point 0.00000000 32.12197797 253.25835556
Rotation angle (degrees) 179.42725500
Shift along axis -0.83032464
> view matrix models
> #9,0.99881,-0.048825,0.00071644,9.7958,0.048825,0.99881,-9.3646e-05,-9.9303,-0.00071101,0.00012851,1,-104.65
> fitmap #9 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#9) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.3277, steps = 44
shifted from previous position = 0.175
rotated from previous position = 0.00832 degrees
atoms outside contour = 43455, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#9) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.17417960 0.98467454 -0.00880309 -28.78056021
0.98470572 -0.17413476 0.00563266 36.83843256
0.00401341 -0.00964955 -0.99994538 506.82434003
Axis -0.76621129 -0.64258681 0.00156309
Axis point 0.00000000 32.13687677 253.26467399
Rotation angle (degrees) 179.42860336
Shift along axis -0.82769024
> fitmap #9 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#9) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.3277, steps = 44
shifted from previous position = 0.0207
rotated from previous position = 0.00967 degrees
atoms outside contour = 43430, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#9) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.17405714 0.98469659 -0.00875830 -28.77744403
0.98472775 -0.17401349 0.00552684 36.84767808
0.00391820 -0.00958653 -0.99994636 506.81800163
Axis -0.76617148 -0.64263424 0.00157962
Axis point -0.00000000 32.12363836 253.26246531
Rotation angle (degrees) 179.43488708
Shift along axis -0.83054112
> fitmap #9 inMap #6
Fit molecule FlaB1_core_monox33_Asym_map_related.pdb (#9) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) using 72006 atoms
average map value = 0.3277, steps = 60
shifted from previous position = 0.0163
rotated from previous position = 0.00982 degrees
atoms outside contour = 43433, contour level = 0.28858
Position of FlaB1_core_monox33_Asym_map_related.pdb (#9) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#6) coordinates:
Matrix rotation and translation
0.17408345 0.98469212 -0.00873784 -28.78484908
0.98472242 -0.17403827 0.00569506 36.80911135
0.00408716 -0.00959577 -0.99994560 506.80050595
Axis -0.76617991 -0.64262434 0.00151779
Axis point 0.00000000 32.12620043 253.25362811
Rotation angle (degrees) 179.42825805
Shift along axis -0.83083908
> ui mousemode right select
> select clear
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #9 models
> show #!7 models
> hide #!7 models
> show #9 models
> hide #9 models
> show #9 models
> hide #9 models
> show #9 models
> select #9/L:114
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #9/M:195
12 atoms, 10 bonds, 2 residues, 1 model selected
> select add #9/J:198
23 atoms, 20 bonds, 3 residues, 1 model selected
> select add #9/h:194
31 atoms, 27 bonds, 4 residues, 1 model selected
> hide #9 models
> show #9 models
> select add #9/E:195
36 atoms, 31 bonds, 5 residues, 1 model selected
> select add #9/H:195
41 atoms, 35 bonds, 6 residues, 1 model selected
> hide #9 models
> show #9 models
> select add #9/D:195
46 atoms, 39 bonds, 7 residues, 1 model selected
> select add #9/G:198
57 atoms, 49 bonds, 8 residues, 1 model selected
> hide #9 models
> show #9 models
> select add #9/g:195
62 atoms, 53 bonds, 9 residues, 1 model selected
> select add #9/B:195
67 atoms, 57 bonds, 10 residues, 1 model selected
> select add #9/e:199
73 atoms, 62 bonds, 11 residues, 1 model selected
> select add #9/c:195
78 atoms, 66 bonds, 12 residues, 1 model selected
> hide #9 models
> show #9 models
> hide #9 models
> show #9 models
> select add #9/a:195
83 atoms, 70 bonds, 13 residues, 1 model selected
> select add #9/b:195
88 atoms, 74 bonds, 14 residues, 1 model selected
> hide #9 models
> show #9 models
> select add #9/Y:195
93 atoms, 78 bonds, 15 residues, 1 model selected
> select add #9/W:195
98 atoms, 82 bonds, 16 residues, 1 model selected
> hide #9 models
> show #9 models
> select add #9/U:199
104 atoms, 87 bonds, 17 residues, 1 model selected
> select add #9/V:198
115 atoms, 97 bonds, 18 residues, 1 model selected
> hide #9 models
> show #9 models
> hide #9 models
> show #9 models
> select add #9/S:195
120 atoms, 101 bonds, 19 residues, 1 model selected
> select add #9/Q:195
125 atoms, 105 bonds, 20 residues, 1 model selected
> hide #9 models
> show #9 models
> select add #9/O:195
130 atoms, 109 bonds, 21 residues, 1 model selected
> select add #9/P:195
135 atoms, 113 bonds, 22 residues, 1 model selected
> hide #9 models
> show #9 models
> split #9
Split FlaB1_core_monox33_Asym_map_related.pdb (#9) into 33 models
Chain information for FlaB1_core_monox33_Asym_map_related.pdb B #9.1
---
Chain | Description
B | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb C #9.2
---
Chain | Description
C | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb D #9.3
---
Chain | Description
D | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb E #9.4
---
Chain | Description
E | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb F #9.5
---
Chain | Description
F | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb G #9.6
---
Chain | Description
G | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb H #9.7
---
Chain | Description
H | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb I #9.8
---
Chain | Description
I | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb J #9.9
---
Chain | Description
J | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb K #9.10
---
Chain | Description
K | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb L #9.11
---
Chain | Description
L | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb M #9.12
---
Chain | Description
M | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb N #9.13
---
Chain | Description
N | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb O #9.14
---
Chain | Description
O | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb P #9.15
---
Chain | Description
P | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Q #9.16
---
Chain | Description
Q | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb R #9.17
---
Chain | Description
R | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb S #9.18
---
Chain | Description
S | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb T #9.19
---
Chain | Description
T | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb U #9.20
---
Chain | Description
U | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb V #9.21
---
Chain | Description
V | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb W #9.22
---
Chain | Description
W | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb X #9.23
---
Chain | Description
X | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Y #9.24
---
Chain | Description
Y | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb Z #9.25
---
Chain | Description
Z | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb a #9.26
---
Chain | Description
a | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb b #9.27
---
Chain | Description
b | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb c #9.28
---
Chain | Description
c | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb d #9.29
---
Chain | Description
d | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb e #9.30
---
Chain | Description
e | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb f #9.31
---
Chain | Description
f | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb g #9.32
---
Chain | Description
g | No description available
Chain information for FlaB1_core_monox33_Asym_map_related.pdb h #9.33
---
Chain | Description
h | No description available
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> select #9.4/E:202
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #9.7/H:195
12 atoms, 10 bonds, 2 residues, 2 models selected
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> select add #9.3/D:195
17 atoms, 14 bonds, 3 residues, 3 models selected
> select add #9.6/G:195
22 atoms, 18 bonds, 4 residues, 4 models selected
> select add #9.32/g:202
29 atoms, 24 bonds, 5 residues, 5 models selected
> select add #9.1/B:198
40 atoms, 34 bonds, 6 residues, 6 models selected
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> select add #9.30/e:202
47 atoms, 40 bonds, 7 residues, 7 models selected
> select add #9.28/c:198
58 atoms, 50 bonds, 8 residues, 8 models selected
> hide #!9 models
> show #!9 models
> select add #9.26/a:199
64 atoms, 55 bonds, 9 residues, 9 models selected
> select add #9.27/b:195
69 atoms, 59 bonds, 10 residues, 10 models selected
> select add #9.24/Y:198
80 atoms, 69 bonds, 11 residues, 11 models selected
> select add #9.22/W:195
85 atoms, 73 bonds, 12 residues, 12 models selected
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> select add #9.20/U:202
92 atoms, 79 bonds, 13 residues, 13 models selected
> select add #9.21/V:199
98 atoms, 84 bonds, 14 residues, 14 models selected
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> select add #9.18/S:198
109 atoms, 94 bonds, 15 residues, 15 models selected
> select add #9.16/Q:198
120 atoms, 104 bonds, 16 residues, 16 models selected
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> select add #9.14/O:205
129 atoms, 112 bonds, 17 residues, 17 models selected
> select add #9.15/P:199
135 atoms, 117 bonds, 18 residues, 18 models selected
> hide #!9 models
> show #!9 models
> select add #9.11/L:199
141 atoms, 122 bonds, 19 residues, 19 models selected
> select add #9.12/M:195
146 atoms, 126 bonds, 20 residues, 20 models selected
> hide #!9 models
> show #!9 models
> select add #9.9/J:202
153 atoms, 132 bonds, 21 residues, 21 models selected
> select add #9.33/h:198
164 atoms, 142 bonds, 22 residues, 22 models selected
> select add #9.2
2346 atoms, 2337 bonds, 308 residues, 23 models selected
> select add #9.5
4528 atoms, 4532 bonds, 594 residues, 24 models selected
> select add #9.8
6710 atoms, 6727 bonds, 880 residues, 25 models selected
> select add #9.10
8892 atoms, 8922 bonds, 1166 residues, 26 models selected
> select add #9.13
11074 atoms, 11117 bonds, 1452 residues, 27 models selected
> select add #9.17
13256 atoms, 13312 bonds, 1738 residues, 28 models selected
> select add #9.19
15438 atoms, 15507 bonds, 2024 residues, 29 models selected
> select add #9.23
17620 atoms, 17702 bonds, 2310 residues, 30 models selected
> select add #9.25
19802 atoms, 19897 bonds, 2596 residues, 31 models selected
> select add #9.29
21984 atoms, 22092 bonds, 2882 residues, 32 models selected
> select add #9.31
24166 atoms, 24287 bonds, 3168 residues, 33 models selected
> select add #9.1
26337 atoms, 26472 bonds, 3453 residues, 33 models selected
> select subtract #9.1
24155 atoms, 24277 bonds, 3167 residues, 32 models selected
> select add #9.3
26332 atoms, 26468 bonds, 3452 residues, 32 models selected
> select subtract #9.3
24150 atoms, 24273 bonds, 3166 residues, 31 models selected
> select add #9.4
26325 atoms, 26462 bonds, 3451 residues, 31 models selected
> select subtract #9.4
24143 atoms, 24267 bonds, 3165 residues, 30 models selected
> select add #9.6
26320 atoms, 26458 bonds, 3450 residues, 30 models selected
> select subtract #9.6
24138 atoms, 24263 bonds, 3164 residues, 29 models selected
> select add #9.7
26315 atoms, 26454 bonds, 3449 residues, 29 models selected
> select subtract #9.7
24133 atoms, 24259 bonds, 3163 residues, 28 models selected
> select add #9.9
26308 atoms, 26448 bonds, 3448 residues, 28 models selected
> select subtract #9.9
24126 atoms, 24253 bonds, 3162 residues, 27 models selected
> select add #9.11
26302 atoms, 26443 bonds, 3447 residues, 27 models selected
> select subtract #9.11
24120 atoms, 24248 bonds, 3161 residues, 26 models selected
> select add #9.12
26297 atoms, 26439 bonds, 3446 residues, 26 models selected
> select subtract #9.12
24115 atoms, 24244 bonds, 3160 residues, 25 models selected
> select add #9.14
26288 atoms, 26431 bonds, 3445 residues, 25 models selected
> select subtract #9.14
24106 atoms, 24236 bonds, 3159 residues, 24 models selected
> select add #9.15
26282 atoms, 26426 bonds, 3444 residues, 24 models selected
> select subtract #9.15
24100 atoms, 24231 bonds, 3158 residues, 23 models selected
> select add #9.16
26271 atoms, 26416 bonds, 3443 residues, 23 models selected
> select subtract #9.16
24089 atoms, 24221 bonds, 3157 residues, 22 models selected
> select add #9.18
26260 atoms, 26406 bonds, 3442 residues, 22 models selected
> select subtract #9.18
24078 atoms, 24211 bonds, 3156 residues, 21 models selected
> select add #9.20
26253 atoms, 26400 bonds, 3441 residues, 21 models selected
> select subtract #9.20
24071 atoms, 24205 bonds, 3155 residues, 20 models selected
> select add #9.21
26247 atoms, 26395 bonds, 3440 residues, 20 models selected
> select subtract #9.21
24065 atoms, 24200 bonds, 3154 residues, 19 models selected
> select add #9.22
26242 atoms, 26391 bonds, 3439 residues, 19 models selected
> select subtract #9.22
24060 atoms, 24196 bonds, 3153 residues, 18 models selected
> select add #9.24
26231 atoms, 26381 bonds, 3438 residues, 18 models selected
> select subtract #9.24
24049 atoms, 24186 bonds, 3152 residues, 17 models selected
> select add #9.26
26225 atoms, 26376 bonds, 3437 residues, 17 models selected
> select subtract #9.26
24043 atoms, 24181 bonds, 3151 residues, 16 models selected
> select add #9.27
26220 atoms, 26372 bonds, 3436 residues, 16 models selected
> select subtract #9.27
24038 atoms, 24177 bonds, 3150 residues, 15 models selected
> select add #9.28
26209 atoms, 26362 bonds, 3435 residues, 15 models selected
> select subtract #9.28
24027 atoms, 24167 bonds, 3149 residues, 14 models selected
> select add #9.30
26202 atoms, 26356 bonds, 3434 residues, 14 models selected
> select subtract #9.30
24020 atoms, 24161 bonds, 3148 residues, 13 models selected
> select add #9.32
26195 atoms, 26350 bonds, 3433 residues, 13 models selected
> select subtract #9.32
24013 atoms, 24155 bonds, 3147 residues, 12 models selected
> select add #9.33
26184 atoms, 26340 bonds, 3432 residues, 12 models selected
> select subtract #9.33
24002 atoms, 24145 bonds, 3146 residues, 11 models selected
> delete atoms sel
> delete bonds sel
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!9 models
> show #!9 models
> show #!7 models
> rename #5 id #8
> show #!6 models
> combine #7-9
Remapping chain ID 'C' in FlaB1_core_monox33_real_refine.pdb C #8.2 to 'G'
Remapping chain ID 'D' in FlaB1_core_monox33_real_refine.pdb D #8.3 to 'H'
Remapping chain ID 'E' in FlaB1_core_monox33_real_refine.pdb E #8.4 to 'M'
Remapping chain ID 'F' in FlaB1_core_monox33_real_refine.pdb F #8.5 to 'P'
Remapping chain ID 'G' in FlaB1_core_monox33_real_refine.pdb G #8.6 to 'Q'
Remapping chain ID 'H' in FlaB1_core_monox33_real_refine.pdb H #8.7 to 'V'
Remapping chain ID 'I' in FlaB1_core_monox33_real_refine.pdb I #8.8 to 'W'
Remapping chain ID 'J' in FlaB1_core_monox33_real_refine.pdb J #8.9 to 'b'
Remapping chain ID 'K' in FlaB1_core_monox33_real_refine.pdb K #8.10 to 'c'
Remapping chain ID 'L' in FlaB1_core_monox33_real_refine.pdb L #8.11 to 'h'
Remapping chain ID 'M' in FlaB1_core_monox33_real_refine.pdb M #8.12 to 'i'
Remapping chain ID 'N' in FlaB1_core_monox33_real_refine.pdb N #8.13 to 'j'
Remapping chain ID 'O' in FlaB1_core_monox33_real_refine.pdb O #8.14 to 'k'
Remapping chain ID 'P' in FlaB1_core_monox33_real_refine.pdb P #8.15 to 'l'
Remapping chain ID 'Q' in FlaB1_core_monox33_real_refine.pdb Q #8.16 to 'm'
Remapping chain ID 'R' in FlaB1_core_monox33_real_refine.pdb R #8.17 to 'n'
Remapping chain ID 'S' in FlaB1_core_monox33_real_refine.pdb S #8.18 to 'o'
Remapping chain ID 'T' in FlaB1_core_monox33_real_refine.pdb T #8.19 to 'p'
Remapping chain ID 'U' in FlaB1_core_monox33_real_refine.pdb U #8.20 to 'q'
Remapping chain ID 'V' in FlaB1_core_monox33_real_refine.pdb V #8.21 to 'r'
Remapping chain ID 'W' in FlaB1_core_monox33_real_refine.pdb W #8.22 to 's'
Remapping chain ID 'X' in FlaB1_core_monox33_real_refine.pdb X #8.23 to 't'
Remapping chain ID 'Y' in FlaB1_core_monox33_real_refine.pdb Y #8.24 to 'u'
Remapping chain ID 'Z' in FlaB1_core_monox33_real_refine.pdb Z #8.25 to 'v'
Remapping chain ID 'a' in FlaB1_core_monox33_real_refine.pdb a #8.26 to 'w'
Remapping chain ID 'b' in FlaB1_core_monox33_real_refine.pdb b #8.27 to 'x'
Remapping chain ID 'c' in FlaB1_core_monox33_real_refine.pdb c #8.28 to 'y'
Remapping chain ID 'd' in FlaB1_core_monox33_real_refine.pdb d #8.29 to 'z'
Remapping chain ID 'e' in FlaB1_core_monox33_real_refine.pdb e #8.30 to '1'
Remapping chain ID 'f' in FlaB1_core_monox33_real_refine.pdb f #8.31 to '2'
Remapping chain ID 'g' in FlaB1_core_monox33_real_refine.pdb g #8.32 to '3'
Remapping chain ID 'h' in FlaB1_core_monox33_real_refine.pdb h #8.33 to '4'
Remapping chain ID 'B' in FlaB1_core_monox33_Asym_map_related.pdb B #9.1 to
'5'
Remapping chain ID 'D' in FlaB1_core_monox33_Asym_map_related.pdb D #9.3 to
'6'
Remapping chain ID 'E' in FlaB1_core_monox33_Asym_map_related.pdb E #9.4 to
'7'
Remapping chain ID 'G' in FlaB1_core_monox33_Asym_map_related.pdb G #9.6 to
'8'
Remapping chain ID 'H' in FlaB1_core_monox33_Asym_map_related.pdb H #9.7 to
'9'
Remapping chain ID 'J' in FlaB1_core_monox33_Asym_map_related.pdb J #9.9 to
'0'
Remapping chain ID 'L' in FlaB1_core_monox33_Asym_map_related.pdb L #9.11 to
'AA'
Remapping chain ID 'M' in FlaB1_core_monox33_Asym_map_related.pdb M #9.12 to
'AB'
Remapping chain ID 'O' in FlaB1_core_monox33_Asym_map_related.pdb O #9.14 to
'AC'
Remapping chain ID 'P' in FlaB1_core_monox33_Asym_map_related.pdb P #9.15 to
'AD'
Remapping chain ID 'Q' in FlaB1_core_monox33_Asym_map_related.pdb Q #9.16 to
'AE'
Remapping chain ID 'S' in FlaB1_core_monox33_Asym_map_related.pdb S #9.18 to
'AF'
Remapping chain ID 'U' in FlaB1_core_monox33_Asym_map_related.pdb U #9.20 to
'AG'
Remapping chain ID 'V' in FlaB1_core_monox33_Asym_map_related.pdb V #9.21 to
'AH'
Remapping chain ID 'W' in FlaB1_core_monox33_Asym_map_related.pdb W #9.22 to
'AI'
Remapping chain ID 'Y' in FlaB1_core_monox33_Asym_map_related.pdb Y #9.24 to
'AJ'
Remapping chain ID 'a' in FlaB1_core_monox33_Asym_map_related.pdb a #9.26 to
'AK'
Remapping chain ID 'b' in FlaB1_core_monox33_Asym_map_related.pdb b #9.27 to
'AL'
Remapping chain ID 'c' in FlaB1_core_monox33_Asym_map_related.pdb c #9.28 to
'AM'
Remapping chain ID 'e' in FlaB1_core_monox33_Asym_map_related.pdb e #9.30 to
'AN'
Remapping chain ID 'g' in FlaB1_core_monox33_Asym_map_related.pdb g #9.32 to
'AO'
Remapping chain ID 'h' in FlaB1_core_monox33_Asym_map_related.pdb h #9.33 to
'AP'
> rename #5 FlaB1_core_long_Asym_map_related.pdb
> rename #7 id #50
> rename #8 id #51
> rename #9 id #52
> rename #6 id #100
> show #!14 models
> hide #5 models
> hide #!14 models
> hide #!50 models
> hide #!51 models
> hide #!52 models
> show #!52 models
> hide #!100 models
> hide #!52 models
> show #!1 models
> show #5 models
> show #!100 models
> hide #!100 models
> close #50-52
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/FlaB1_core_long_Asym_map_related.pdb
> models #5
> fitmap #5 inMap #1
Fit molecule FlaB1_core_long_Asym_map_related.pdb (#5) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) using 168014 atoms
average map value = 0.2885, steps = 48
shifted from previous position = 0.139
rotated from previous position = 0.273 degrees
atoms outside contour = 98391, contour level = 0.21455
Position of FlaB1_core_long_Asym_map_related.pdb (#5) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
0.99729210 0.07276207 -0.01068409 -12.22365137
-0.07284267 0.99731630 -0.00735809 15.09549785
0.01012002 0.00811643 0.99991585 101.60823505
Axis 0.10463160 -0.14066784 -0.98451246
Axis point 6.76654419 19.50459491 0.00000000
Rotation angle (degrees) 4.24075836
Shift along axis -103.43700489
> fitmap #5 inMap #1
Fit molecule FlaB1_core_long_Asym_map_related.pdb (#5) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) using 168014 atoms
average map value = 0.2885, steps = 36
shifted from previous position = 0.00589
rotated from previous position = 0.00451 degrees
atoms outside contour = 98403, contour level = 0.21455
Position of FlaB1_core_long_Asym_map_related.pdb (#5) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
0.99729160 0.07276011 -0.01074423 -12.22132135
-0.07284068 0.99731682 -0.00730742 15.09312058
0.01018372 0.00807024 0.99991558 101.60737245
Axis 0.10397425 -0.14150185 -0.98446259
Axis point 5.52201206 20.36409667 0.00000000
Rotation angle (degrees) 4.24085855
Shift along axis -103.43506377
> fitmap #5 inMap #1
Fit molecule FlaB1_core_long_Asym_map_related.pdb (#5) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) using 168014 atoms
average map value = 0.2885, steps = 36
shifted from previous position = 0.00077
rotated from previous position = 0.000115 degrees
atoms outside contour = 98403, contour level = 0.21455
Position of FlaB1_core_long_Asym_map_related.pdb (#5) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
0.99729160 0.07276028 -0.01074268 -12.22077062
-0.07284085 0.99731680 -0.00730868 15.09310244
0.01018207 0.00807139 0.99991559 101.60737307
Axis 0.10399045 -0.14148009 -0.98446400
Axis point 5.55382112 20.33469527 0.00000000
Rotation angle (degrees) 4.24086220
Shift along axis -103.43501802
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/FlaB1_core_long_Asym_map_related.pdb
> models #5
> rename #14 id #50
> rename #15 id #51
> rename #16 id #52
> rename #17 id #53
> rename #18 id #54
> surface dust #1 size 10.7
> volume zone #1 nearAtoms #5 range 5 invert false newMap true minimalBounds
> true bondPointSpacing 2
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone as #6, grid size
143,142,360, pixel 1.07, shown at step 1, values float32
> surface dust #6 size 10.7
> show #!29 models
> hide #!29 models
> hide #5 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!1 models
> show #3 models
> show #!2 models
> hide #!1 models
> show #!4 models
> hide #!4 models
> hide #!2 models
> hide #3 models
> show #!1 models
> show #!29 models
> color #1 #fff6b6ff models
> show #29.1 models
> show #29.2 models
> show #29.4 models
> show #29.5 models
> show #29.6 models
> show #29.7 models
> show #29.8 models
> show #29.10 models
> show #29.11 models
> show #29.13 models
> show #29.15 models
> show #29.16 models
> show #29.17 models
> show #29.19-26 target m
> show #29.28-29,31,33#!29.30,32 target m
> show #!2 models
> fitmap #1 inMap #2
Fit map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc in map
cryosparc_P1_J2054_003_volume_map_sharp.mrc using 1071722 points
correlation = 0.8533, correlation about mean = 0.3716, overlap = 6.226e+04
steps = 44, shift = 0.0143, angle = 0.00675 degrees
Position of J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) relative to
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
0.99960097 -0.02512280 0.01291274 1.71650824
0.02498124 0.99962729 0.01101016 -5.95417463
-0.01318453 -0.01068319 0.99985601 3.93815070
Axis -0.35847791 0.43125176 0.82795864
Axis point 240.66343486 65.60876593 0.00000000
Rotation angle (degrees) 1.73389594
Shift along axis 0.07754731
> hide #!2 models
> select add #29
86328 atoms, 88077 bonds, 10824 residues, 34 models selected
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> view matrix models
> #29,0.99613,-0.086759,0.014154,14.52,0.086713,0.99623,0.0038109,-16.747,-0.014431,-0.0025689,0.99989,3.2962
> ui mousemode right "translate selected models"
> view matrix models
> #29,0.99613,-0.086759,0.014154,13.8,0.086713,0.99623,0.0038109,-19.881,-0.014431,-0.0025689,0.99989,-1.9449
> combine #29
> rename #34 Asym_part_1
> rename #35 Asym_part_2
> rename #36 Asym_part_3
> rename #37 Asym_part_4
> rename #34 id #55
> rename #35 id #56
> rename #36 id #57
> rename #37 id #58
> rename #29 id #59
> select subtract #59
8 models selected
> hide #!59 models
> hide #7 models
> show #7 models
> select add #7
86328 atoms, 88077 bonds, 10824 residues, 1 model selected
> view matrix models
> #7,0.99613,-0.086759,0.014154,15.399,0.086713,0.99623,0.0038109,-17.284,-0.014431,-0.0025689,0.99989,-6.8556
> fitmap #7 inMap #1
Fit molecule combination (#7) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) using 86328 atoms
average map value = 0.09462, steps = 108
shifted from previous position = 4.16
rotated from previous position = 3.01 degrees
atoms outside contour = 73237, contour level = 0.21455
Position of combination (#7) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
0.99393330 -0.10908529 -0.01403561 24.50277736
0.10921820 0.99397635 0.00907727 -21.60512789
0.01296087 -0.01055514 0.99986029 -13.35697843
Axis -0.08889849 -0.12224406 0.98851072
Axis point 223.20745786 201.82388960 0.00000000
Rotation angle (degrees) 6.33954996
Shift along axis -12.74067776
> fitmap #7 inMap #1
Fit molecule combination (#7) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) using 86328 atoms
average map value = 0.09462, steps = 60
shifted from previous position = 0.00805
rotated from previous position = 0.0013 degrees
atoms outside contour = 73248, contour level = 0.21455
Position of combination (#7) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
0.99393226 -0.10909212 -0.01405638 24.50495381
0.10922532 0.99397552 0.00908295 -21.61467706
0.01298082 -0.01056315 0.99985995 -13.36029768
Axis -0.08895244 -0.12241739 0.98848442
Axis point 223.30123626 201.81793730 0.00000000
Rotation angle (degrees) 6.34012617
Shift along axis -12.74020928
> fitmap #7 inMap #1
Fit molecule combination (#7) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) using 86328 atoms
average map value = 0.09461, steps = 44
shifted from previous position = 0.018
rotated from previous position = 0.00724 degrees
atoms outside contour = 73238, contour level = 0.21455
Position of combination (#7) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
0.99394140 -0.10901039 -0.01404355 24.48297559
0.10914470 0.99398349 0.00917908 -21.60427539
0.01295844 -0.01065624 0.99985925 -13.32807100
Axis -0.08986931 -0.12233986 0.98841108
Axis point 223.32925176 201.68539838 0.00000000
Rotation angle (degrees) 6.33586414
Shift along axis -12.73081704
> hide #!1 models
> show #!1 models
> volume #1 level 0.2944
> volume #1 level 0.1
> volume #1 level 0.5
> hide #7 models
> show #7 models
> ui mousemode right "rotate selected models"
> view matrix models
> #7,0.5445,-0.83454,-0.084056,262.37,-0.838,-0.54554,-0.012025,459.44,-0.035821,0.076986,-0.99639,369.85
> view matrix models
> #7,0.54231,-0.83958,-0.031627,253.48,-0.84008,-0.5413,-0.035503,463.63,0.012688,0.045823,-0.99887,366.94
> ui mousemode right "translate selected models"
> view matrix models
> #7,0.54231,-0.83958,-0.031627,254.38,-0.84008,-0.5413,-0.035503,463.79,0.012688,0.045823,-0.99887,357.9
> ui mousemode right "rotate selected models"
> view matrix models
> #7,0.72259,-0.69011,-0.040214,192.83,-0.69068,-0.71832,-0.083514,478.2,0.028748,0.088121,-0.99569,346.12
> view matrix models
> #7,0.97961,-0.16884,-0.10887,57.349,-0.18003,-0.97828,-0.10276,433.22,-0.089151,0.12027,-0.98873,361.33
> fitmap #7 inMap #1
Fit molecule combination (#7) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) using 86328 atoms
average map value = 0.2469, steps = 144
shifted from previous position = 2.82
rotated from previous position = 9.24 degrees
atoms outside contour = 70723, contour level = 0.5
Position of combination (#7) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
0.96130148 -0.27517333 0.01338204 57.30741243
-0.27514505 -0.96139462 -0.00394614 430.25992424
0.01395129 0.00011143 -0.99990266 365.66743829
Axis 0.99027821 -0.13892955 0.00690274
Axis point 0.00000000 218.96076353 182.85648400
Rotation angle (degrees) 179.88261820
Shift along axis -0.50142984
> volume #1 level 0.3
> select subtract #7
Nothing selected
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/FlaA1_sheath_monox33_Asym_map_related.pdb
> models #7
> show #3 models
> hide #!1 models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/FlaA1_sheath_monox33_Asym_map_related.pdb
> models #7
> rename #7 FlaA1_sheath_sym_part
> split #7
Split FlaA1_sheath_sym_part (#7) into 33 models
Chain information for FlaA1_sheath_sym_part A #7.1
---
Chain | Description
A | No description available
Chain information for FlaA1_sheath_sym_part B #7.2
---
Chain | Description
B | No description available
Chain information for FlaA1_sheath_sym_part C #7.3
---
Chain | Description
C | No description available
Chain information for FlaA1_sheath_sym_part D #7.4
---
Chain | Description
D | No description available
Chain information for FlaA1_sheath_sym_part E #7.5
---
Chain | Description
E | No description available
Chain information for FlaA1_sheath_sym_part F #7.6
---
Chain | Description
F | No description available
Chain information for FlaA1_sheath_sym_part G #7.7
---
Chain | Description
G | No description available
Chain information for FlaA1_sheath_sym_part H #7.8
---
Chain | Description
H | No description available
Chain information for FlaA1_sheath_sym_part I #7.9
---
Chain | Description
I | No description available
Chain information for FlaA1_sheath_sym_part J #7.10
---
Chain | Description
J | No description available
Chain information for FlaA1_sheath_sym_part K #7.11
---
Chain | Description
K | No description available
Chain information for FlaA1_sheath_sym_part L #7.12
---
Chain | Description
L | No description available
Chain information for FlaA1_sheath_sym_part M #7.13
---
Chain | Description
M | No description available
Chain information for FlaA1_sheath_sym_part N #7.14
---
Chain | Description
N | No description available
Chain information for FlaA1_sheath_sym_part O #7.15
---
Chain | Description
O | No description available
Chain information for FlaA1_sheath_sym_part P #7.16
---
Chain | Description
P | No description available
Chain information for FlaA1_sheath_sym_part Q #7.17
---
Chain | Description
Q | No description available
Chain information for FlaA1_sheath_sym_part R #7.18
---
Chain | Description
R | No description available
Chain information for FlaA1_sheath_sym_part S #7.19
---
Chain | Description
S | No description available
Chain information for FlaA1_sheath_sym_part T #7.20
---
Chain | Description
T | No description available
Chain information for FlaA1_sheath_sym_part U #7.21
---
Chain | Description
U | No description available
Chain information for FlaA1_sheath_sym_part V #7.22
---
Chain | Description
V | No description available
Chain information for FlaA1_sheath_sym_part W #7.23
---
Chain | Description
W | No description available
Chain information for FlaA1_sheath_sym_part X #7.24
---
Chain | Description
X | No description available
Chain information for FlaA1_sheath_sym_part Y #7.25
---
Chain | Description
Y | No description available
Chain information for FlaA1_sheath_sym_part Z #7.26
---
Chain | Description
Z | No description available
Chain information for FlaA1_sheath_sym_part a #7.27
---
Chain | Description
a | No description available
Chain information for FlaA1_sheath_sym_part b #7.28
---
Chain | Description
b | No description available
Chain information for FlaA1_sheath_sym_part c #7.29
---
Chain | Description
c | No description available
Chain information for FlaA1_sheath_sym_part d #7.30
---
Chain | Description
d | No description available
Chain information for FlaA1_sheath_sym_part e #7.31
---
Chain | Description
e | No description available
Chain information for FlaA1_sheath_sym_part f #7.32
---
Chain | Description
f | No description available
Chain information for FlaA1_sheath_sym_part g #7.33
---
Chain | Description
g | No description available
> ui mousemode right select
> select #3/G:160
12 atoms, 12 bonds, 1 residue, 1 model selected
> select clear
> select #7.13/M:308
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #7.14/N:304
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #7.16/P:330
25 atoms, 22 bonds, 3 residues, 3 models selected
> select add #7.15/O:330
34 atoms, 30 bonds, 4 residues, 4 models selected
> select add #7.6/F:327
42 atoms, 37 bonds, 5 residues, 5 models selected
> select add #7.12/L:326
53 atoms, 48 bonds, 6 residues, 6 models selected
> select clear
> select #7.13/M:26
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #7.14/N:25
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #7.16/P:25
24 atoms, 21 bonds, 3 residues, 3 models selected
> select add #7.15/O:25
32 atoms, 28 bonds, 4 residues, 4 models selected
> select add #7.6/F:26
40 atoms, 35 bonds, 5 residues, 5 models selected
> select add #7.12/L:26
48 atoms, 42 bonds, 6 residues, 6 models selected
> select add #7.10/J:26
56 atoms, 49 bonds, 7 residues, 7 models selected
> select add #7.9/I:27
64 atoms, 56 bonds, 8 residues, 8 models selected
> select add #7.11/K:27
72 atoms, 63 bonds, 9 residues, 9 models selected
> select add #7.6
2680 atoms, 2725 bonds, 336 residues, 9 models selected
> select add #7.9
5288 atoms, 5387 bonds, 663 residues, 9 models selected
> select add #7.10
7896 atoms, 8049 bonds, 990 residues, 9 models selected
> select add #7.11
10504 atoms, 10711 bonds, 1317 residues, 9 models selected
> select add #7.12
13112 atoms, 13373 bonds, 1644 residues, 9 models selected
> select add #7.13
15720 atoms, 16035 bonds, 1971 residues, 9 models selected
> select add #7.14
18328 atoms, 18697 bonds, 2298 residues, 9 models selected
> select add #7.15
20936 atoms, 21359 bonds, 2625 residues, 9 models selected
> select add #7.16
23544 atoms, 24021 bonds, 2952 residues, 9 models selected
> delete atoms sel
> delete bonds sel
> hide #3 models
> show #3 models
> view orient
> view
> preset "overall look" interactive
Using preset: Overall Look / Interactive
Preset expands to these ChimeraX commands:
~set bg
graphics silhouettes f
lighting depthCue t
> preset "overall look" "publication 1 (silhouettes)"
Using preset: Overall Look / Publication 1 (Silhouettes)
> set bgColor #ffffff00
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
lighting depthCue f
> show #!52 models
> hide #!52 models
> show #!4 models
> hide #!7 models
> show #!7 models
> show #!1 models
> hide #!1 models
> show #!2 models
> hide #!2 models
> show #5 models
> hide #5 models
> show #!6 models
> hide #!6 models
> volume zone #1 nearAtoms #7 range 5 invert false newMap true minimalBounds
> true bondPointSpacing 2
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone as #8, grid size
203,203,233, pixel 1.07, shown at step 1, values float32
> surface dust #4 size 10.7
> surface dust #8 size 10.7
> view orient
> show #!6 models
> view orient
> volume #1 level 0.5369
> volume #6 level 0.3
> hide #3 models
> hide #!8 models
> show #!8 models
> hide #!7 models
> show #3 models
> view orient
> view
> lighting soft
> volume #4 level 0.1
> volume #6 level 0.2
> volume #6 level 0.3
> volume #6 level 0.4
> volume #8 level 0.4
> volume #6 level 0.5
> view
> view orient
> volume #4 level 0.2
> volume #4 level 0.1
> volume #4 level 0.08
> volume #4 level 0.1
> volume #8 level 0.3
> volume #6 level 0.3
> volume #6 level 0.4
> volume #6 level 0.5
> volume #8 level 0.25
> hide #3 models
> show #55 models
> hide #55 models
> show #55 models
> split #55
Split Asym_part_1 (#55) into 5 models
Chain information for Asym_part_1 A #55.1
---
Chain | Description
A | No description available
Chain information for Asym_part_1 B #55.2
---
Chain | Description
B | No description available
Chain information for Asym_part_1 C #55.3
---
Chain | Description
C | No description available
Chain information for Asym_part_1 D #55.4
---
Chain | Description
D | No description available
Chain information for Asym_part_1 E #55.5
---
Chain | Description
E | No description available
> hide #55.1 models
> show #55.1 models
> ui tool show "Color Zone"
> color zone #4 near #55.1 distance 3.48
> color single #4
> color zone #4 near #55.3 distance 4
> color zone #4 near #55.3 distance 4.1
> color zone #4 near #55.3 distance 4.2
> color zone #4 near #55.3 distance 4.3
> color zone #4 near #55.3 distance 4.4
> color zone #4 near #55.3 distance 4.5
> color zone #4 near #55.3 distance 4.6
> color zone #4 near #55.3 distance 4.7
> color zone #4 near #55.3 distance 4.8
> color zone #4 near #55.3 distance 4.9
> color zone #4 near #55.3 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #9.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #9.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.1 size 10.7
> surface dust #9.2 size 10.7
> hide #!9.1 models
> show #!9.1 models
> hide #!9 models
> show #!4 models
> color zone #4 near #55.1 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #10.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #10.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #10.1 size 10.7
> surface dust #10.2 size 10.7
> hide #!10 models
> show #!4 models
> color zone #4 near #55.2 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #11.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #11.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #11.1 size 10.7
> surface dust #11.2 size 10.7
> show #!9 models
> show #!10 models
> hide #!9.2 models
> show #!9.2 models
> hide #!9.1 models
> hide #!10.1 models
> hide #!11.1 models
> color zone #4 near #55.4 distance 5
> show #!4 models
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #12.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #12.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.1 size 10.7
> surface dust #12.2 size 10.7
> show #!4 models
> color zone #4 near #55.5 distance 5
> hide #!12.1 models
> color zone #4 near #55.5 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #13.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #13.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.1 size 10.7
> surface dust #13.2 size 10.7
> hide #!13.1 models
Color zone shortcut requires 1 displayed atomic model and 1 map, got 5 atomic
models, 7 maps.
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> hide #!55 models
> volume #8 level 0.2
> view orient
> view
> view orient
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/1-Map_top_view.png
> width 1658 height 1210 supersample 3 transparentBackground true
> color #6 #febe0eff models
> color #6 #fdd900ff models
> color #6 #fff6b6ff models
> color #6 #feff46ff models
> color #6 #fff6b6ff models
> color #6 #fff49aff models
> color #6 #ffe494ff models
> color #6 #ffdb8eff models
> color #8 #80e388ff models
> color #8 #a9fab5ff models
> color #8 #3587b7ff models
> color #8 #a9fab5ff models
> lighting soft
> lighting simple
> lighting soft
> lighting full
> lighting shadows false
> lighting soft
> lighting simple
> lighting soft
> graphics silhouettes false
> graphics silhouettes true
> lighting full
> volume #!6,8#!9.2#!10.2#!11.2#!12.2#!13.2 style surface
> volume #!6,8#!9.2#!10.2#!11.2#!12.2#!13.2 region all imageMode "full region"
> volume unzone #!6,8#!9.2#!10.2#!11.2#!12.2#!13.2
> mousemode rightMode "crop volume"
> volume #!6,8#!9.2#!10.2#!11.2#!12.2#!13.2 region all imageMode "full region"
> volume unzone #!6,8#!9.2#!10.2#!11.2#!12.2#!13.2
> mousemode rightMode "crop volume"
> volume #!6,8#!9.2#!10.2#!11.2#!12.2#!13.2 style surface
> volume show
> volume hide
> show #!1 models
> hide #!1 models
> show #!4 models
> hide #!4 models
> show #!6 models
> show #!7 models
> hide #!7 models
> show #!4 models
> hide #!4 models
> show #!9.2 models
> show #!10.2 models
> show #!11.2 models
> show #!12.2 models
> show #!13.2 models
> surface dust #6 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> show #!7 models
> hide #!7 models
> show #!8 models
> lighting soft
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> lighting simple
> lighting full
> lighting shadows false
> lighting shadows true
> lighting soft
> view
> graphics silhouettes false
> graphics silhouettes true
> lighting flat
> lighting soft
> lighting full
> lighting flat
> lighting full
> lighting soft
> set bgColor black
> set bgColor transparent
> lighting simple
> lighting soft
> preset "overall look" "publication 1 (silhouettes)"
Using preset: Overall Look / Publication 1 (Silhouettes)
> set bgColor #ffffff00
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
lighting depthCue f
> view
> view orient
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> color #10.2 #ff8e00ff models
> color #10.2 #3587b7ff models
> color #10.2 #ff8e00ff models
> color #10.2 #00fdffff models
> color #10.2 #0096ffff models
> color #10.2 #0433ffff models
> color #10.2 #9437ffff models
> color #10.2 #00fa92ff models
> color #10.2 #009051ff models
> color #10.2 #009193ff models
> color #10.2 #005493ff models
> color #10.2 #011993ff models
> color #10.2 #942193ff models
> color #10.2 #ff40ffff models
> color #10.2 #ff2f92ff models
> color #10.2 #ff85ffff models
> color #10.2 #d783ffff models
> color #10.2 #ff85ffff models
> color #10.2 #ff8ad8ff models
> color #10.2 #ff9df4ff models
> color #10.2 #ff7efdff models
> color #10.2 #ff97f2ff models
> color #12.2 #ff97f2ff models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/1-Map_top_view.png
> width 1658 height 1210 supersample 3 transparentBackground true
> split #56
Split Asym_part_2 (#56) into 5 models
Chain information for Asym_part_2 A #56.1
---
Chain | Description
A | No description available
Chain information for Asym_part_2 B #56.2
---
Chain | Description
B | No description available
Chain information for Asym_part_2 C #56.3
---
Chain | Description
C | No description available
Chain information for Asym_part_2 D #56.4
---
Chain | Description
D | No description available
Chain information for Asym_part_2 E #56.5
---
Chain | Description
E | No description available
> split #57
Split Asym_part_3 (#57) into 5 models
Chain information for Asym_part_3 A #57.1
---
Chain | Description
A | No description available
Chain information for Asym_part_3 B #57.2
---
Chain | Description
B | No description available
Chain information for Asym_part_3 C #57.3
---
Chain | Description
C | No description available
Chain information for Asym_part_3 D #57.4
---
Chain | Description
D | No description available
Chain information for Asym_part_3 E #57.5
---
Chain | Description
E | No description available
> split #58
Split Asym_part_4 (#58) into 5 models
Chain information for Asym_part_4 A #58.1
---
Chain | Description
A | No description available
Chain information for Asym_part_4 B #58.2
---
Chain | Description
B | No description available
Chain information for Asym_part_4 C #58.3
---
Chain | Description
C | No description available
Chain information for Asym_part_4 D #58.4
---
Chain | Description
D | No description available
Chain information for Asym_part_4 E #58.5
---
Chain | Description
E | No description available
> close #9.1
> close #10.1
> close #11.1
> close #12.1
> close #13.1
> color #50 #ff97f2ff
> color #53 #ff97f2ff
> color #56.1 #ff97f2ff
> color #56.4 #ff97f2ff
> color #57.1 #ff97f2ff
> color #57.4 #ff97f2ff
> color #58.1 #ff97f2ff
> color #58.4 #ff97f2ff
> show #!59 models
> hide #!59 models
> show #!4 models
> color zone #4 near #56.1 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #14.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #14.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> color zone #4 near #56.2 distance 5
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> show #!4 models
> hide #!4 models
> hide #!8 models
> show #!4 models
> hide #!9 models
> hide #!10 models
> hide #!11 models
> hide #!12 models
> hide #!13 models
> hide #!14 models
> show #!14 models
> hide #!14 models
> close #14.1
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #15.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #15.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #15.1
> hide #!15 models
> show #!4 models
> color zone #4 near #56.3 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #16.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #16.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #16.1
> hide #!16 models
> color zone #4 near #56.4 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #17.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #17.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #17.1
> hide #!17 models
> color zone #4 near #56.5 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #18.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #18.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #18.1
> hide #!18 models
> color zone #4 near #57.1 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #19.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #19.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> color zone #4 near #57.2 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #20.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #20.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #19.1
> close #20.1
> hide #!19 models
> hide #!20 models
> color zone #4 near #57.3 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #21.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #21.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #21.1
> hide #!21 models
> color zone #4 near #57.4 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #22.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #22.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #22.1
> hide #!22 models
> color zone #4 near #57.5 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #23.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #23.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #23.1
> hide #!23 models
> color zone #4 near #58.1 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #24.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #24.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #24.1
> hide #!24 models
> color zone #4 near #58.2 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #25.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #25.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #25.1
> hide #!25 models
> color zone #4 near #58.3 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #26.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #26.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> hide #!26 models
> close #26.1
> color zone #4 near #58.4 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #27.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #27.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #27.1
> hide #!27 models
> color zone #4 near #58.5 distance 5
> volume splitbyzone #4
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 0 as #28.1, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone 1 as #28.2, grid size
144,95,226, pixel 1.07, shown at level 0.1, step 1, values float32
> close #28.1
> hide #!28 models
> show #!4 models
> hide #!4 models
> show #!7 models
> hide #!7 models
> show #!8 models
> show #!9 models
> show #!10 models
> show #!11 models
> show #!12 models
> show #!13 models
> show #!14 models
> show #!15 models
> show #!16 models
> show #!17 models
> show #!18 models
> show #!19 models
> show #!20 models
> show #!21 models
> show #!22 models
> show #!23 models
> show #!24 models
> show #!25 models
> show #!26 models
> show #!27 models
> show #!28 models
> surface dust #6 size 10.7
> surface dust #8 size 10.7
> surface dust #9.2 size 10.7
> surface dust #10.2 size 10.7
> surface dust #11.2 size 10.7
> surface dust #12.2 size 10.7
> surface dust #13.2 size 10.7
> surface dust #14.2 size 10.7
> surface dust #15.2 size 10.7
> surface dust #16.2 size 10.7
> surface dust #17.2 size 10.7
> surface dust #18.2 size 10.7
> surface dust #19.2 size 10.7
> surface dust #20.2 size 10.7
> surface dust #21.2 size 10.7
> surface dust #22.2 size 10.7
> surface dust #23.2 size 10.7
> surface dust #24.2 size 10.7
> surface dust #25.2 size 10.7
> surface dust #26.2 size 10.7
> surface dust #27.2 size 10.7
> surface dust #28.2 size 10.7
Color zone shortcut requires 1 displayed atomic model and 1 map, got 0 atomic
models, 22 maps.
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/1-Map_side_view.png
> width 1658 height 1210 supersample 3 transparentBackground true
> rename #9.2 id #9.1
> rename #10.2 id #9.2
> rename #11.2 id #9.3
> close #10-11
> rename #12.2 id #9.4
> rename #13.2 id #9.5
> close #12-13
> hide #!9 models
> show #!9 models
> hide #!9 models
> show #!9 models
> rename #14.2 id #14.1
> rename #15.2 id #14.2
> rename #14 id #10
> rename #16.2 id #10
> rename #17.2 id #10
> rename #18.2 id #10
> hide #!10 models
> show #!10 models
> close #15-18
> rename #19 id #11
> rename #10.3 id #10.8
> rename #10.2 id #10.3
> rename #10.1 id #10.2
> rename #10.8 id #10.1
> rename #21.2 id #11
> rename #20.2 id #11
> rename #22.2 id #11
> rename #23.2 id #11
> hide #!11 models
> show #!11 models
> close #20-23
> rename #24 id #12
> rename #26.2 id #12
> rename #25.2 id #12
> rename #27.2 id #12
> rename #28.2 id #12
> hide #!12 models
> show #!12 models
> hide #!12 models
> show #!12 models
> close #25-28
> hide #!9 models
> hide #!10 models
> hide #!11 models
> hide #!12 models
> show #3 models
> hide #3 models
> hide #!56 models
> hide #!57 models
> show #56-58 target m
> hide #!56 models
> hide #!57 models
> hide #!58 models
> hide #!6 models
> hide #!8 models
> show #!55 models
> hide #!55 models
> show #!55 models
> show #!8 models
> hide #!8 models
> show #3 models
> hide #3 models
> show #5 models
> split #5
Split FlaB1_core_long_Asym_map_related.pdb (#5) into 77 models
Chain information for FlaB1_core_long_Asym_map_related.pdb 0 #5.1
---
Chain | Description
0 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 1 #5.2
---
Chain | Description
1 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 2 #5.3
---
Chain | Description
2 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 3 #5.4
---
Chain | Description
3 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 4 #5.5
---
Chain | Description
4 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 5 #5.6
---
Chain | Description
5 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 6 #5.7
---
Chain | Description
6 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 7 #5.8
---
Chain | Description
7 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 8 #5.9
---
Chain | Description
8 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb 9 #5.10
---
Chain | Description
9 | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AA #5.11
---
Chain | Description
AA | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AB #5.12
---
Chain | Description
AB | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AC #5.13
---
Chain | Description
AC | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AD #5.14
---
Chain | Description
AD | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AE #5.15
---
Chain | Description
AE | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AF #5.16
---
Chain | Description
AF | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AG #5.17
---
Chain | Description
AG | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AH #5.18
---
Chain | Description
AH | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AI #5.19
---
Chain | Description
AI | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AJ #5.20
---
Chain | Description
AJ | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AK #5.21
---
Chain | Description
AK | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AL #5.22
---
Chain | Description
AL | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AM #5.23
---
Chain | Description
AM | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AN #5.24
---
Chain | Description
AN | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AO #5.25
---
Chain | Description
AO | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb AP #5.26
---
Chain | Description
AP | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb B #5.27
---
Chain | Description
B | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb C #5.28
---
Chain | Description
C | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb D #5.29
---
Chain | Description
D | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb E #5.30
---
Chain | Description
E | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb F #5.31
---
Chain | Description
F | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb G #5.32
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G | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb H #5.33
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Chain information for FlaB1_core_long_Asym_map_related.pdb I #5.34
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Chain information for FlaB1_core_long_Asym_map_related.pdb J #5.35
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Chain information for FlaB1_core_long_Asym_map_related.pdb K #5.36
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Chain information for FlaB1_core_long_Asym_map_related.pdb L #5.37
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Chain information for FlaB1_core_long_Asym_map_related.pdb M #5.38
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M | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb N #5.39
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N | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb O #5.40
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O | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb P #5.41
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P | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb Q #5.42
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Chain information for FlaB1_core_long_Asym_map_related.pdb R #5.43
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R | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb S #5.44
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S | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb T #5.45
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T | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb U #5.46
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U | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb V #5.47
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V | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb W #5.48
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W | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb X #5.49
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X | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb Y #5.50
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Y | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb Z #5.51
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Chain information for FlaB1_core_long_Asym_map_related.pdb a #5.52
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a | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb b #5.53
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Chain information for FlaB1_core_long_Asym_map_related.pdb c #5.54
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Chain information for FlaB1_core_long_Asym_map_related.pdb d #5.55
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Chain information for FlaB1_core_long_Asym_map_related.pdb g #5.58
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Chain information for FlaB1_core_long_Asym_map_related.pdb h #5.59
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Chain information for FlaB1_core_long_Asym_map_related.pdb i #5.60
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i | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb j #5.61
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j | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb k #5.62
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m | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb n #5.65
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Chain information for FlaB1_core_long_Asym_map_related.pdb o #5.66
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Chain | Description
o | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb p #5.67
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Chain information for FlaB1_core_long_Asym_map_related.pdb q #5.68
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Chain | Description
q | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb r #5.69
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Chain | Description
r | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb s #5.70
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Chain | Description
s | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb t #5.71
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Chain | Description
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Chain information for FlaB1_core_long_Asym_map_related.pdb u #5.72
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Chain | Description
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Chain information for FlaB1_core_long_Asym_map_related.pdb v #5.73
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Chain | Description
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Chain information for FlaB1_core_long_Asym_map_related.pdb w #5.74
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Chain | Description
w | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb x #5.75
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Chain | Description
x | No description available
Chain information for FlaB1_core_long_Asym_map_related.pdb y #5.76
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Chain | Description
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Chain information for FlaB1_core_long_Asym_map_related.pdb z #5.77
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Chain | Description
z | No description available
> color #55.1 #ff97f2ff
> color #55.4 #ff97f2ff
> show #!7 models
> show #!56 models
> hide #!55 models
> hide #!5 models
> color #7 #a9fab5ff models
> volume #9.1 region 0,0,0,143,94,225
> ui mousemode right select
> select add #7.4/D:185
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #7.1/A:160
17 atoms, 15 bonds, 2 residues, 2 models selected
> select add #7.31/e:314
26 atoms, 23 bonds, 3 residues, 3 models selected
> select add #7.28/b:304
35 atoms, 31 bonds, 4 residues, 4 models selected
> select add #7.25/Y:308
42 atoms, 37 bonds, 5 residues, 5 models selected
> select add #7.22/V:308
49 atoms, 43 bonds, 6 residues, 6 models selected
> select add #7.8/H:304
58 atoms, 51 bonds, 7 residues, 7 models selected
> select add #7.19/S:308
65 atoms, 57 bonds, 8 residues, 8 models selected
> hide #7.2-3 target m
> hide #7.5 models
> hide #7.7 models
> hide #7.17 models
> hide #7.18 models
> hide #7.20 models
> hide #7.21 models
> hide #7.23 models
> hide #7.24 models
> hide #7.26 models
> hide #7.27 models
> hide #7.29 models
> hide #7.30 models
> hide #7.32 models
> hide #7.33 models
> select clear
> hide #!7 models
> show #!7 models
> hide #!7 models
> show #!5 models
> select #5.53/b:122
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #5.38/M:165
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #5.47/V:195
21 atoms, 18 bonds, 3 residues, 3 models selected
> select add #5.33/H:209
30 atoms, 26 bonds, 4 residues, 4 models selected
> select add #5.4/3:227
37 atoms, 32 bonds, 5 residues, 5 models selected
> select add #5.27/B:195
42 atoms, 36 bonds, 6 residues, 6 models selected
> select add #5.2/1:212
51 atoms, 44 bonds, 7 residues, 7 models selected
> select add #5.74/w:231
59 atoms, 51 bonds, 8 residues, 8 models selected
> select add #5.75/x:198
70 atoms, 61 bonds, 9 residues, 9 models selected
> select add #5.72/u:212
79 atoms, 69 bonds, 10 residues, 10 models selected
> select add #5.68/q:65
87 atoms, 76 bonds, 11 residues, 11 models selected
> select add #5.69/r:194
95 atoms, 83 bonds, 12 residues, 12 models selected
> select add #5.66/o:213
104 atoms, 91 bonds, 13 residues, 13 models selected
> select add #5.62/k:231
112 atoms, 98 bonds, 14 residues, 14 models selected
> hide #5.1 models
> hide #5.3 models
> hide #5.5-16 target m
> hide #5.17-25 target m
> hide #5.26 models
> hide #5.28-32 target m
> hide #5.34-37 target m
> hide #5.39-46 target m
> hide #5.48-52 target m
> hide #5.54-61 target m
> hide #5.63-65 target m
> hide #5.67 models
> hide #5.70-71 target m
> hide #5.73 models
> hide #5.76 models
> hide #5.77 models
> select clear
> show #5.73 models
> hide #5.73 models
> show #5.71 models
> hide #5.71 models
> show #5.70 models
> hide #5.70 models
> show #5.67 models
> hide #5.67 models
> show #5.65 models
> hide #5.65 models
> show #5.64 models
> hide #5.64 models
> show #5.63 models
> hide #5.63 models
> show #5.61 models
> hide #5.61 models
> show #5.60 models
> select #5.69/r:198
11 atoms, 10 bonds, 1 residue, 1 model selected
> hide #5.69 models
> select #5.75/x:195
5 atoms, 4 bonds, 1 residue, 1 model selected
> hide #5.75 models
> select #5.27/B:200
8 atoms, 7 bonds, 1 residue, 1 model selected
> hide #5.27 models
> select #5.47/V:195
5 atoms, 4 bonds, 1 residue, 1 model selected
> hide #!5 models
> show #!5 models
> hide #5.47 models
> select clear
> hide #!56 models
> show #!56 models
> color #5 #ffdb8eff models
> view orient
> lighting soft
> lighting simple
> lighting soft
> preset "overall look" "publication 1 (silhouettes)"
Using preset: Overall Look / Publication 1 (Silhouettes)
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
lighting depthCue f
> lighting soft
> lighting flat
> lighting soft
> lighting flat
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/1-Model_top_view.png
> width 1658 height 1210 supersample 3 transparentBackground true
> show #!7 models
> hide #!7 models
> show #!7 models
> show #!4 models
> hide #!4 models
> show #!6 models
> hide #!6 models
> show #!8 models
> hide #!8 models
> hide #!7 models
> hide #!5 models
> show #!7 models
> hide #!7 models
> show #!5 models
> hide #!5 models
> show #!1 models
> hide #!1 models
> show #!4 models
> hide #!4 models
> show #3 models
> hide #3 models
> show #!2 models
> hide #!2 models
> show #!5 models
> hide #!5 models
> show #!6 models
> lighting soft
> show #!5 models
> hide #!5 models
> show #!5 models
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
Alignment identifier is 1
> hide #!6 models
> show #!6 models
> hide #!56 models
> select clear
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [115] RMSD: 167.880
> show #!1 models
> hide #!6 models
> volume #1 level 0.4873
> hide #!1 models
> show #!1 models
> color (#5.2,4,33,38,53,60,62,66,68,72,74 & sel) red
> color zone #1 near sel distance 6
> color zone #1 near sel distance 6.39
> color zone #1 near sel distance 8.98
> color zone #1 near sel distance 9
> select clear
> select #5.53/b:115
6 atoms, 5 bonds, 1 residue, 1 model selected
> color single #1
> color zone #1 near sel distance 9
> volume splitbyzone #1
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 0 as #13.1, grid size
360,360,360, pixel 1.07, shown at level 0.487, step 1, values float32
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 as #13.2, grid size
360,360,360, pixel 1.07, shown at level 0.487, step 1, values float32
> select clear
> hide #!13.1 models
> hide #!5 models
> close #13.1
> ui tool show "Segment Map"
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 16 region surfaces
27 watershed regions, grouped to 16 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 16 regions, 16
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 16 region surfaces
27 watershed regions, grouped to 16 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 16 regions, 16
surfaces
> select #14.1
1 model selected
> select clear
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 16 region surfaces
27 watershed regions, grouped to 16 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 16 regions, 16
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 1 region surfaces
27 watershed regions, grouped to 1 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 1 regions, 1
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 24 region surfaces
27 watershed regions, grouped to 24 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 24 regions, 24
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 27 region surfaces
27 watershed regions, grouped to 27 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 27 regions, 27
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 16 region surfaces
27 watershed regions, grouped to 16 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 16 regions, 16
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 24 region surfaces
27 watershed regions, grouped to 24 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 24 regions, 24
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 16 region surfaces
27 watershed regions, grouped to 16 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 16 regions, 16
surfaces
> select #14.3
1 model selected
Grouped 15 regions
Deleted 1 regions
> select #13.2
2 models selected
> select #14.3
1 model selected
Showing 1 region surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1, density threshold
0.487293
Showing 16 region surfaces
27 watershed regions, grouped to 16 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map 1.seg - 16 regions, 16
surfaces
> select #14.3
1 model selected
Grouped 15 regions
> select #14.1
1 model selected
> select clear
> select #14.1
1 model selected
> surface dust #13.2 size 10.7
> select clear
> select #14.3
1 model selected
> select clear
> select #14.1
1 model selected
> select clear
> select #14.1
1 model selected
> select clear
> select #14.1
1 model selected
> select #13.2
2 models selected
> select clear
> select #13.2
2 models selected
> volume sel hide
> select #14.3
1 model selected
> select clear
> volume show
> volume #!1-2,4,6,8,100#!13.2 hide
> show #!13.2 models
> select #14.3
1 model selected
> select clear
Showing 2 region surfaces
> select #14.1
1 model selected
> select #14.3
1 model selected
> select clear
> select #14.1
1 model selected
> select clear
> select #14.1
1 model selected
> select clear
> select #14.1
1 model selected
> ui tool show "Map Eraser"
> ui mousemode right "translate selected models"
> select add #14
3 models selected
> select subtract #14
Nothing selected
> select add #15
1 model selected
> view matrix models #15,1,0,0,140.45,0,1,0,187.99,0,0,1,240.03
No atoms selected for color zoning
> volume erase #13.2 center 140.45,187.99,240.03 radius 3.1283
> view matrix models #15,1,0,0,140.72,0,1,0,183.57,0,0,1,245.42
> view matrix models #15,1,0,0,136.83,0,1,0,182.18,0,0,1,246.06
> volume erase #13.2 center 136.83,182.18,246.06 radius 3.1283
> view matrix models #15,1,0,0,142.95,0,1,0,190.89,0,0,1,245.96
> volume erase #13.2 center 142.95,190.89,245.96 radius 3.1283
> view matrix models #15,1,0,0,141.61,0,1,0,189.59,0,0,1,238.26
> view matrix models #15,1,0,0,142.23,0,1,0,192.57,0,0,1,237.71
> volume erase #13.2 center 142.23,192.57,237.71 radius 3.1283
> undo
> hide #!14 models
> show #!14 models
> hide #!13.2 models
> show #!13.2 models
> volume copy #13.2 subregion 123,166,226,132,175,235
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #16, grid size
10,10,10, pixel 1.07, shown at step 1, values float32
> volume copy #16 subregion 0,0,0,9,9,9
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #17, grid size
10,10,10, pixel 1.07, shown at step 1, values float32
> volume copy #17 subregion 0,0,0,9,9,9
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #18, grid size
10,10,10, pixel 1.07, shown at step 1, values float32
> volume copy #18 subregion 0,0,0,9,9,9
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #19, grid size
10,10,10, pixel 1.07, shown at step 1, values float32
> volume copy #19 subregion 0,0,0,9,9,9
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #20, grid size
10,10,10, pixel 1.07, shown at step 1, values float32
> view matrix models #15,1,0,0,137.16,0,1,0,194.55,0,0,1,243.88
> volume copy #20 subregion 1,9,0,9,9,7
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #21, grid size
9,1,8, pixel 1.07, shown at step 1, values float32
> volume copy #21 subregion 0,0,0,8,0,7
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #22, grid size
9,1,8, pixel 1.07, shown at step 1, values float32
> volume copy #22 subregion 0,0,0,8,0,7
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #23, grid size
9,1,8, pixel 1.07, shown at step 1, values float32
> volume copy #23 subregion 0,0,0,8,0,7
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #24, grid size
9,1,8, pixel 1.07, shown at step 1, values float32
> view matrix models #15,1,0,0,135.98,0,1,0,192.75,0,0,1,240.1
> volume copy #24 subregion 0,0,0,8,0,3
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc 1 copy as #25, grid size
9,1,4, pixel 1.07, shown at step 1, values float32
> volume erase #25 center 135.98,192.75,240.1 radius 3.8448 outside true
> volume erase #25 center 135.98,192.75,240.1 radius 3.8448
> view matrix models #15,1,0,0,145.75,0,1,0,187.58,0,0,1,241.99
> show #!16 models
> show #!17 models
> show #!18 models
> show #!19 models
> close #16-25
> select subtract #15
Nothing selected
> show #!13.2 models
> close #13
> ~hbonds
Alignment identifier is 1
Alignment identifier is 2
Alignment identifier is 3
Alignment identifier is 4
Alignment identifier is 5
Alignment identifier is 6
Alignment identifier is 7
Alignment identifier is 8
> close #15
> close #14
> show #!5 models
> hide #!5 models
> show #!5 models
> ui mousemode right select
> select #5.60/i:115
6 atoms, 5 bonds, 1 residue, 1 model selected
> show #!6 models
> select #5.53/b:115
6 atoms, 5 bonds, 1 residue, 1 model selected
> ui tool show "Color Zone"
> color zone #6 near sel distance 7
> color zone #6 near sel distance 7.1
> color zone #6 near sel distance 7.2
> color zone #6 near sel distance 7.3
> color zone #6 near sel distance 7.4
> color zone #6 near sel distance 7.5
> color zone #6 near sel distance 7.6
> color zone #6 near sel distance 7.7
> color zone #6 near sel distance 7.8
> color zone #6 near sel distance 7.9
> color zone #6 near sel distance 8
> color zone #6 near sel distance 8.1
> color zone #6 near sel distance 8.2
> color zone #6 near sel distance 8.3
> color zone #6 near sel distance 8.4
> color zone #6 near sel distance 8.5
> color zone #6 near sel distance 8.6
> color zone #6 near sel distance 8.7
> color zone #6 near sel distance 8.8
> color zone #6 near sel distance 8.7
> color zone #6 near sel distance 8.8
> color zone #6 near sel distance 8.9
> color zone #6 near sel distance 9
> volume splitbyzone #6
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 0 as #13.1, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1 as #13.2, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
> close #13.1
> hide #!5 models
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
> select add #13.2
2 models selected
> select subtract #13.2
Nothing selected
> ui tool show "Segment Map"
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 16 region surfaces
28 watershed regions, grouped to 16 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 16 regions, 16
surfaces
> select #14.3
1 model selected
Grouped 15 regions
> select clear
> select #14.3
1 model selected
Saving 1 regions to mrc file...
Opened S115_glycan.mrc as #15, grid size 9,10,12, pixel 1.07, shown at step 1,
values float32
Wrote S115_glycan.mrc
> select clear
> hide #!13 models
> hide #!14 models
> close #16
> volume #15 level 0.05253
> volume #15 style mesh
> volume #15 step 2
> volume #15 step 1
> graphics silhouettes false
> color #15 red models
> volume #15 style surface
> color #15 #ff1721ff models
> color #15 #d7333cff models
> color #15 #ff1721ff models
> lighting soft
> lighting flat
> lighting soft
> graphics silhouettes false
> color #15 #e93323ff models
> color #15 #ff1721ff models
> color #15 red models
> color #15 #ff1721ff models
> color #15 #d7333cff models
> color #15 #ff1721ff models
> show #!5 models
> graphics silhouettes true
> show #!6 models
> color single #6
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
Alignment identifier is 1
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [115] RMSD: 167.880
> select clear
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 167.782
> color (#5.2,4,33,38,53,60,62,66,68,72,74 & sel) red
> select clear
> select #5.1/0:126-127 #5.2/1:126-127 #5.3/2:126-127 #5.4/3:126-127
> #5.5/4:126-127 #5.6/5:126-127 #5.7/6:126-127 #5.8/7:126-127 #5.9/8:126-127
> #5.10/9:126-127 #5.11/AA:126-127 #5.12/AB:126-127 #5.13/AC:126-127
> #5.14/AD:126-127 #5.15/AE:126-127 #5.16/AF:126-127 #5.17/AG:126-127
> #5.18/AH:126-127 #5.19/AI:126-127 #5.20/AJ:126-127 #5.21/AK:126-127
> #5.22/AL:126-127 #5.23/AM:126-127 #5.24/AN:126-127 #5.25/AO:126-127
> #5.26/AP:126-127 #5.27/B:126-127 #5.28/C:126-127 #5.29/D:126-127
> #5.30/E:126-127 #5.31/F:126-127 #5.32/G:126-127 #5.33/H:126-127
> #5.34/I:126-127 #5.35/J:126-127 #5.36/K:126-127 #5.37/L:126-127
> #5.38/M:126-127 #5.39/N:126-127 #5.40/O:126-127 #5.41/P:126-127
> #5.42/Q:126-127 #5.43/R:126-127 #5.44/S:126-127 #5.45/T:126-127
> #5.46/U:126-127 #5.47/V:126-127 #5.48/W:126-127 #5.49/X:126-127
> #5.50/Y:126-127 #5.51/Z:126-127 #5.52/a:126-127 #5.53/b:126-127
> #5.54/c:126-127 #5.55/d:126-127 #5.56/e:126-127 #5.57/f:126-127
> #5.58/g:126-127 #5.59/h:126-127 #5.60/i:126-127 #5.61/j:126-127
> #5.62/k:126-127 #5.63/l:126-127 #5.64/m:126-127 #5.65/n:126-127
> #5.66/o:126-127 #5.67/p:126-127 #5.68/q:126-127 #5.69/r:126-127
> #5.70/s:126-127 #5.71/t:126-127 #5.72/u:126-127 #5.73/v:126-127
> #5.74/w:126-127 #5.75/x:126-127 #5.76/y:126-127 #5.77/z:126-127
924 atoms, 847 bonds, 154 residues, 77 models selected
> select #5.1/0:126-127 #5.2/1:126-127 #5.3/2:126-127 #5.4/3:126-127
> #5.5/4:126-127 #5.6/5:126-127 #5.7/6:126-127 #5.8/7:126-127 #5.9/8:126-127
> #5.10/9:126-127 #5.11/AA:126-127 #5.12/AB:126-127 #5.13/AC:126-127
> #5.14/AD:126-127 #5.15/AE:126-127 #5.16/AF:126-127 #5.17/AG:126-127
> #5.18/AH:126-127 #5.19/AI:126-127 #5.20/AJ:126-127 #5.21/AK:126-127
> #5.22/AL:126-127 #5.23/AM:126-127 #5.24/AN:126-127 #5.25/AO:126-127
> #5.26/AP:126-127 #5.27/B:126-127 #5.28/C:126-127 #5.29/D:126-127
> #5.30/E:126-127 #5.31/F:126-127 #5.32/G:126-127 #5.33/H:126-127
> #5.34/I:126-127 #5.35/J:126-127 #5.36/K:126-127 #5.37/L:126-127
> #5.38/M:126-127 #5.39/N:126-127 #5.40/O:126-127 #5.41/P:126-127
> #5.42/Q:126-127 #5.43/R:126-127 #5.44/S:126-127 #5.45/T:126-127
> #5.46/U:126-127 #5.47/V:126-127 #5.48/W:126-127 #5.49/X:126-127
> #5.50/Y:126-127 #5.51/Z:126-127 #5.52/a:126-127 #5.53/b:126-127
> #5.54/c:126-127 #5.55/d:126-127 #5.56/e:126-127 #5.57/f:126-127
> #5.58/g:126-127 #5.59/h:126-127 #5.60/i:126-127 #5.61/j:126-127
> #5.62/k:126-127 #5.63/l:126-127 #5.64/m:126-127 #5.65/n:126-127
> #5.66/o:126-127 #5.67/p:126-127 #5.68/q:126-127 #5.69/r:126-127
> #5.70/s:126-127 #5.71/t:126-127 #5.72/u:126-127 #5.73/v:126-127
> #5.74/w:126-127 #5.75/x:126-127 #5.76/y:126-127 #5.77/z:126-127
924 atoms, 847 bonds, 154 residues, 77 models selected
1 [ID: 1] region 77 chains [126-127] RMSD: 166.821
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 167.782
> ui tool show "Side View"
> show #!5 target m
> select clear
> select add #5.74
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> select add #5.72
4364 atoms, 4390 bonds, 572 residues, 2 models selected
> select add #5.68
6546 atoms, 6585 bonds, 858 residues, 3 models selected
> select add #5.66
8728 atoms, 8780 bonds, 1144 residues, 4 models selected
> select add #5.62
10910 atoms, 10975 bonds, 1430 residues, 5 models selected
> select add #5.60
13092 atoms, 13170 bonds, 1716 residues, 6 models selected
> select add #5.53
15274 atoms, 15365 bonds, 2002 residues, 7 models selected
> select add #5.38
17456 atoms, 17560 bonds, 2288 residues, 8 models selected
> select add #5.33
19638 atoms, 19755 bonds, 2574 residues, 9 models selected
> select add #5.4
21820 atoms, 21950 bonds, 2860 residues, 10 models selected
> select add #5.2
24002 atoms, 24145 bonds, 3146 residues, 11 models selected
> combine sel
> hide #16 models
> select clear
> show #16 models
> hide #!5 models
> hide #16 models
> show #16 models
> hide #16 models
> show #16 models
> rename #16 core_one_layer
> hide #16 models
> show #!5 models
> show #5.1-77 target m
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 167.782
> color sel red
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [115] RMSD: 167.880
> color sel red
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 167.782
> select clear
> select #5.72/u:126
6 atoms, 5 bonds, 1 residue, 1 model selected
> color zone #6 near sel distance 9
> color zone #6 near sel distance 8.9
> color zone #6 near sel distance 8.8
> color zone #6 near sel distance 8.7
> color zone #6 near sel distance 8.6
> color zone #6 near sel distance 8.5
> color zone #6 near sel distance 8.4
> color zone #6 near sel distance 8.3
> color zone #6 near sel distance 8.2
> color zone #6 near sel distance 8.1
> color zone #6 near sel distance 8
> color zone #6 near sel distance 7.9
> color zone #6 near sel distance 7.8
> color zone #6 near sel distance 7.7
> color zone #6 near sel distance 7.6
> color zone #6 near sel distance 7.5
> color zone #6 near sel distance 7.4
> color zone #6 near sel distance 7.3
> color zone #6 near sel distance 7.2
> color zone #6 near sel distance 7.1
> color zone #6 near sel distance 7
> color zone #6 near sel distance 6.9
> color zone #6 near sel distance 6.8
> color zone #6 near sel distance 6.7
> color zone #6 near sel distance 6.6
> color zone #6 near sel distance 6.5
> color zone #6 near sel distance 6.4
> color zone #6 near sel distance 6.5
> color zone #6 near sel distance 6.6
> volume splitbyzone #6
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 0 as #17.1, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1 as #17.2, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
> show #!13 models
> hide #!13 models
> hide #!15 models
> show #!15 models
> close #13
> close #14
> show #!9 models
> hide #!9 models
> hide #!17.1 models
> show #!17.1 models
> close #17.1
> hide #!5 models
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 8 region surfaces
14 watershed regions, grouped to 8 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 8 regions, 8
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 8 region surfaces
14 watershed regions, grouped to 8 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 8 regions, 8
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 8 region surfaces
14 watershed regions, grouped to 8 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 8 regions, 8
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 8 region surfaces
14 watershed regions, grouped to 8 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 8 regions, 8
surfaces
> hide #!17.2 models
> show #!17.2 models
> select #17.2
2 models selected
> select #17.2
2 models selected
> select clear
> hide #!17 models
> show #!17 models
> hide #!17 models
> show #!17 models
> hide #!13 models
> show #!13 models
> hide #!13 models
> show #!6 models
> hide #!6 models
> show #!6 models
> show #!5 models
> hide #!5 models
> hide #!6 models
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Traceback (most recent call last):
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segger/segment_dialog.py", line 389, in _segment
self.Segment()
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segger/segment_dialog.py", line 2123, in Segment
smod = self.SegmentAndGroup(show, group)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segger/segment_dialog.py", line 2158, in SegmentAndGroup
self.SetSurfaceGranularity(smod)
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/segger/segment_dialog.py", line 1300, in
SetSurfaceGranularity
res = self._surface_granularity.value
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/composite.py", line 185, in _get_value
return self.string_to_value(self._line_edit.text())
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
ValueError: invalid literal for int() with base 10: '0.5'
ValueError: invalid literal for int() with base 10: '0.5'
File
"/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/widgets/composite.py", line 185, in _get_value
return self.string_to_value(self._line_edit.text())
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
See log for complete Python traceback.
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 0 regions, 0
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 14 region surfaces
14 watershed regions, grouped to 14 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 14 regions, 14
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 14 region surfaces
14 watershed regions, grouped to 14 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 14 regions, 14
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 8 region surfaces
14 watershed regions, grouped to 8 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 8 regions, 8
surfaces
No atoms selected for color zoning
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 11 region surfaces
14 watershed regions, grouped to 11 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 11 regions, 11
surfaces
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 11 region surfaces
14 watershed regions, grouped to 11 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 11 regions, 11
surfaces
> select #13.3
1 model selected
> select clear
> close #13
> show #!6 models
> close #17
> color single #6
> show #!5 models
> select #5.74/w:126
6 atoms, 5 bonds, 1 residue, 1 model selected
> color zone #6 near sel distance 6.6
> color zone #6 near sel distance 6.5
> color zone #6 near sel distance 6.4
> color zone #6 near sel distance 6.3
> color zone #6 near sel distance 6.2
> color zone #6 near sel distance 6.1
> color zone #6 near sel distance 6
> color zone #6 near sel distance 5.9
> color zone #6 near sel distance 5.8
> color zone #6 near sel distance 5.7
> color zone #6 near sel distance 5.6
> color zone #6 near sel distance 5.5
> color zone #6 near sel distance 5.4
> color zone #6 near sel distance 5.3
> color zone #6 near sel distance 5.4
> color zone #6 near sel distance 5.5
> volume splitbyzone #6
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 0 as #13.1, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1 as #13.2, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
> close #13.1
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> hide #!5 models
> select subtract #5
Nothing selected
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 7 region surfaces
10 watershed regions, grouped to 7 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 7 regions, 7
surfaces
> hide #!14 models
> show #!14 models
> hide #!14 models
> show #!14 models
> hide #!13.2 models
> show #!13.2 models
> close #14
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 7 region surfaces
10 watershed regions, grouped to 7 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 7 regions, 7
surfaces
> select #13.2
2 models selected
Ungrouped to 5 regions
> select #13.2
2 models selected
> ui mousemode right "translate selected models"
> select add #13
3 models selected
> select subtract #13
Nothing selected
> select add #14
11 models selected
> view matrix models #14,1,0,0,0.3082,0,1,0,2.104,0,0,1,-1.4605
> view matrix models #14,1,0,0,-0.013222,0,1,0,2.5361,0,0,1,-1.4033
> select subtract #14
Nothing selected
> ui mousemode right select
> select #14.3
1 model selected
> select add #14.10
2 models selected
> select clear
> select add #14
11 models selected
> select clear
> select add #14
11 models selected
> ui mousemode right "translate selected models"
> view matrix models #14,1,0,0,-0.32789,0,1,0,2.5916,0,0,1,-1.4485
> hide #!15 models
> show #!15 models
> hide #!15 models
> view
> show #!15 models
> view matrix models #14,1,0,0,-0.43082,0,1,0,2.6973,0,0,1,-1.4061
> select subtract #14
Nothing selected
> ui mousemode right select
> select #14.3
1 model selected
> select clear
> show #!6 models
> hide #!6 models
> select #14.10
1 model selected
Ungrouped to 0 regions
> select #14.3
1 model selected
> select #14.10
1 model selected
> select #14.9
1 model selected
> select #14.3
1 model selected
Grouped 9 regions
> select clear
> select #14.3
1 model selected
Saving 1 regions to mrc file...
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07, shown at step 1,
values float32
Wrote S126_glycan.mrc
> close #14
> close #13
> hide #!17 models
> show #!17 models
> volume #17 level 0.05255
> color #17 #ff1721ff models
> hide #!15 models
> hide #!17 models
> show #!6 models
> show #!5 models
> color single #6
> select #5.1/0:137 #5.2/1:137 #5.3/2:137 #5.4/3:137 #5.5/4:137 #5.6/5:137
> #5.7/6:137 #5.8/7:137 #5.9/8:137 #5.10/9:137 #5.11/AA:137 #5.12/AB:137
> #5.13/AC:137 #5.14/AD:137 #5.15/AE:137 #5.16/AF:137 #5.17/AG:137
> #5.18/AH:137 #5.19/AI:137 #5.20/AJ:137 #5.21/AK:137 #5.22/AL:137
> #5.23/AM:137 #5.24/AN:137 #5.25/AO:137 #5.26/AP:137 #5.27/B:137 #5.28/C:137
> #5.29/D:137 #5.30/E:137 #5.31/F:137 #5.32/G:137 #5.33/H:137 #5.34/I:137
> #5.35/J:137 #5.36/K:137 #5.37/L:137 #5.38/M:137 #5.39/N:137 #5.40/O:137
> #5.41/P:137 #5.42/Q:137 #5.43/R:137 #5.44/S:137 #5.45/T:137 #5.46/U:137
> #5.47/V:137 #5.48/W:137 #5.49/X:137 #5.50/Y:137 #5.51/Z:137 #5.52/a:137
> #5.53/b:137 #5.54/c:137 #5.55/d:137 #5.56/e:137 #5.57/f:137 #5.58/g:137
> #5.59/h:137 #5.60/i:137 #5.61/j:137 #5.62/k:137 #5.63/l:137 #5.64/m:137
> #5.65/n:137 #5.66/o:137 #5.67/p:137 #5.68/q:137 #5.69/r:137 #5.70/s:137
> #5.71/t:137 #5.72/u:137 #5.73/v:137 #5.74/w:137 #5.75/x:137 #5.76/y:137
> #5.77/z:137
539 atoms, 462 bonds, 77 residues, 77 models selected
> select #5.1/0:137 #5.2/1:137 #5.3/2:137 #5.4/3:137 #5.5/4:137 #5.6/5:137
> #5.7/6:137 #5.8/7:137 #5.9/8:137 #5.10/9:137 #5.11/AA:137 #5.12/AB:137
> #5.13/AC:137 #5.14/AD:137 #5.15/AE:137 #5.16/AF:137 #5.17/AG:137
> #5.18/AH:137 #5.19/AI:137 #5.20/AJ:137 #5.21/AK:137 #5.22/AL:137
> #5.23/AM:137 #5.24/AN:137 #5.25/AO:137 #5.26/AP:137 #5.27/B:137 #5.28/C:137
> #5.29/D:137 #5.30/E:137 #5.31/F:137 #5.32/G:137 #5.33/H:137 #5.34/I:137
> #5.35/J:137 #5.36/K:137 #5.37/L:137 #5.38/M:137 #5.39/N:137 #5.40/O:137
> #5.41/P:137 #5.42/Q:137 #5.43/R:137 #5.44/S:137 #5.45/T:137 #5.46/U:137
> #5.47/V:137 #5.48/W:137 #5.49/X:137 #5.50/Y:137 #5.51/Z:137 #5.52/a:137
> #5.53/b:137 #5.54/c:137 #5.55/d:137 #5.56/e:137 #5.57/f:137 #5.58/g:137
> #5.59/h:137 #5.60/i:137 #5.61/j:137 #5.62/k:137 #5.63/l:137 #5.64/m:137
> #5.65/n:137 #5.66/o:137 #5.67/p:137 #5.68/q:137 #5.69/r:137 #5.70/s:137
> #5.71/t:137 #5.72/u:137 #5.73/v:137 #5.74/w:137 #5.75/x:137 #5.76/y:137
> #5.77/z:137
539 atoms, 462 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [137] RMSD: 169.412
> color sel red
> select #5.59/h:137
7 atoms, 6 bonds, 1 residue, 1 model selected
> select clear
> select #5.59/h:137
7 atoms, 6 bonds, 1 residue, 1 model selected
> color zone #6 near sel distance 5.5
> color zone #6 near sel distance 5.6
> color zone #6 near sel distance 5.7
> color zone #6 near sel distance 5.8
> color zone #6 near sel distance 5.9
> color zone #6 near sel distance 6
> color zone #6 near sel distance 6.1
> color zone #6 near sel distance 6.2
> color zone #6 near sel distance 6.3
> color zone #6 near sel distance 6.4
> color zone #6 near sel distance 6.5
> color zone #6 near sel distance 6.6
> color zone #6 near sel distance 6.7
> color zone #6 near sel distance 6.8
> color zone #6 near sel distance 6.9
> color zone #6 near sel distance 7
> color zone #6 near sel distance 7.1
> color zone #6 near sel distance 7.2
> color zone #6 near sel distance 7.3
> color zone #6 near sel distance 7.4
> color zone #6 near sel distance 7.5
> color zone #6 near sel distance 7.6
> color zone #6 near sel distance 7.7
> color zone #6 near sel distance 7.8
> color zone #6 near sel distance 7.9
> color zone #6 near sel distance 8
> color zone #6 near sel distance 8.1
> color zone #6 near sel distance 8.2
> color zone #6 near sel distance 8.3
> color zone #6 near sel distance 8.4
> color zone #6 near sel distance 8.5
> color zone #6 near sel distance 8.6
> color zone #6 near sel distance 8.7
> color zone #6 near sel distance 8.8
> color zone #6 near sel distance 8.9
> color zone #6 near sel distance 9
> color zone #6 near sel distance 9.1
> color zone #6 near sel distance 9.2
> color zone #6 near sel distance 9.3
> color zone #6 near sel distance 9.4
> volume splitbyzone #6
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 0 as #13.1, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1 as #13.2, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
> close #13.1
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
> hide #!5 models
> show #!6 models
> hide #!6 models
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 18 region surfaces
28 watershed regions, grouped to 18 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 18 regions, 18
surfaces
> select #14.13
1 model selected
> select add #14.6
2 models selected
Grouped 16 regions
> select clear
> select #14.13
1 model selected
> select add #14.6
2 models selected
Grouped 2 regions
> select clear
> select add #14
3 models selected
> ui mousemode right "translate selected models"
> view matrix models #14,1,0,0,0.048099,0,1,0,0.11042,0,0,1,0.3625
> view matrix models #14,1,0,0,0.4258,0,1,0,0.14735,0,0,1,0.53558
> view matrix models #14,1,0,0,0.60118,0,1,0,0.058667,0,0,1,0.60876
> view matrix models #14,1,0,0,0.83969,0,1,0,-0.022001,0,0,1,0.72488
> view matrix models #14,1,0,0,0.89322,0,1,0,0.22642,0,0,1,0.79609
> view matrix models #14,1,0,0,0.85382,0,1,0,0.31038,0,0,1,0.73332
> view matrix models #14,1,0,0,1.0804,0,1,0,0.2974,0,0,1,0.57119
> ui mousemode right select
> select clear
> select #14.2
1 model selected
Saving 1 regions to mrc file...
Opened T137_glycan.mrc as #18, grid size 11,10,9, pixel 1.07, shown at step 1,
values float32
Wrote T137_glycan.mrc
> hide #!18 models
> show #!18 models
> hide #!13.2 models
> show #!13.2 models
> close #13
> close #14
> volume #18 level 0.05507
> volume #15 level 0.055
> volume #17 level 0.055
> volume #18 level 0.055
> color #18 #ff1721ff models
> show #!17 models
> show #!15 models
> hide #!15 models
> hide #!17 models
> hide #!18 models
> show #!6 models
> color single #6
> show #!5 models
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [152] RMSD: 170.337
> color sel red
> select clear
> select #5.3/2:19
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #6
3 models selected
> select clear
> select #5.38/M:152
6 atoms, 5 bonds, 1 residue, 1 model selected
> select clear
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [152] RMSD: 170.337
> select #5.66/o:152
6 atoms, 5 bonds, 1 residue, 1 model selected
> color zone #6 near sel distance 9.4
> color zone #6 near sel distance 9.3
> color zone #6 near sel distance 9.2
> color zone #6 near sel distance 9.1
> color zone #6 near sel distance 9
> color zone #6 near sel distance 8.9
> color zone #6 near sel distance 8.8
> color zone #6 near sel distance 8.7
> color zone #6 near sel distance 8.6
> color zone #6 near sel distance 8.5
> color zone #6 near sel distance 8.4
> color zone #6 near sel distance 8.3
> color zone #6 near sel distance 8.2
> color zone #6 near sel distance 8.1
> color zone #6 near sel distance 8
> color zone #6 near sel distance 7.9
> color zone #6 near sel distance 7.8
> color zone #6 near sel distance 7.7
> color zone #6 near sel distance 7.6
> color zone #6 near sel distance 7.5
> color zone #6 near sel distance 7.4
> color zone #6 near sel distance 7.3
> color zone #6 near sel distance 7.2
> color zone #6 near sel distance 7.1
> color zone #6 near sel distance 7
> color zone #6 near sel distance 6.9
> color zone #6 near sel distance 6.8
> color zone #6 near sel distance 6.7
> color zone #6 near sel distance 6.6
> color zone #6 near sel distance 6.5
> color zone #6 near sel distance 6.6
> color zone #6 near sel distance 6.7
> color zone #6 near sel distance 6.8
> volume splitbyzone #6
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 0 as #13.1, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1 as #13.2, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
> hide #!13.1 models
> close #13.1
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
> hide #!5 models
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 8 region surfaces
16 watershed regions, grouped to 8 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 8 regions, 8
surfaces
> select #14.1
1 model selected
Ungrouped to 3 regions
> select clear
> select add #14
11 models selected
> ui mousemode right "translate selected models"
> view matrix models #14,1,0,0,0.72533,0,1,0,1.0824,0,0,1,-0.2948
> select subtract #14
Nothing selected
> select add #13.2
2 models selected
> select subtract #13.2
Nothing selected
> select add #14
11 models selected
> view matrix models #14,1,0,0,0.62634,0,1,0,1.4193,0,0,1,-0.6186
> show #!6 models
> show #!5 models
> hide #!5 models
> hide #!6 models
> view matrix models #14,1,0,0,0.81743,0,1,0,1.5569,0,0,1,-0.47505
> select subtract #14
Nothing selected
> ui mousemode right select
> select #14.11
1 model selected
> select add #14.10
2 models selected
Grouped 2 regions
Grouped 8 regions
> select clear
> select #14.1
1 model selected
Saving 1 regions to mrc file...
Opened S152_glycan.mrc as #19, grid size 9,11,10, pixel 1.07, shown at step 1,
values float32
Wrote S152_glycan.mrc
> close #14
> close #13
> volume #19 level 0.055
> color #19 #ff1721ff models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/Td_DFlaB3_analysis.cxs
> includeMaps true
> show #!6 models
> show #!5 models
> color single #6
> hide #!19 models
> select #5.1/0:171 #5.2/1:171 #5.3/2:171 #5.4/3:171 #5.5/4:171 #5.6/5:171
> #5.7/6:171 #5.8/7:171 #5.9/8:171 #5.10/9:171 #5.11/AA:171 #5.12/AB:171
> #5.13/AC:171 #5.14/AD:171 #5.15/AE:171 #5.16/AF:171 #5.17/AG:171
> #5.18/AH:171 #5.19/AI:171 #5.20/AJ:171 #5.21/AK:171 #5.22/AL:171
> #5.23/AM:171 #5.24/AN:171 #5.25/AO:171 #5.26/AP:171 #5.27/B:171 #5.28/C:171
> #5.29/D:171 #5.30/E:171 #5.31/F:171 #5.32/G:171 #5.33/H:171 #5.34/I:171
> #5.35/J:171 #5.36/K:171 #5.37/L:171 #5.38/M:171 #5.39/N:171 #5.40/O:171
> #5.41/P:171 #5.42/Q:171 #5.43/R:171 #5.44/S:171 #5.45/T:171 #5.46/U:171
> #5.47/V:171 #5.48/W:171 #5.49/X:171 #5.50/Y:171 #5.51/Z:171 #5.52/a:171
> #5.53/b:171 #5.54/c:171 #5.55/d:171 #5.56/e:171 #5.57/f:171 #5.58/g:171
> #5.59/h:171 #5.60/i:171 #5.61/j:171 #5.62/k:171 #5.63/l:171 #5.64/m:171
> #5.65/n:171 #5.66/o:171 #5.67/p:171 #5.68/q:171 #5.69/r:171 #5.70/s:171
> #5.71/t:171 #5.72/u:171 #5.73/v:171 #5.74/w:171 #5.75/x:171 #5.76/y:171
> #5.77/z:171
539 atoms, 462 bonds, 77 residues, 77 models selected
> select #5.1/0:171 #5.2/1:171 #5.3/2:171 #5.4/3:171 #5.5/4:171 #5.6/5:171
> #5.7/6:171 #5.8/7:171 #5.9/8:171 #5.10/9:171 #5.11/AA:171 #5.12/AB:171
> #5.13/AC:171 #5.14/AD:171 #5.15/AE:171 #5.16/AF:171 #5.17/AG:171
> #5.18/AH:171 #5.19/AI:171 #5.20/AJ:171 #5.21/AK:171 #5.22/AL:171
> #5.23/AM:171 #5.24/AN:171 #5.25/AO:171 #5.26/AP:171 #5.27/B:171 #5.28/C:171
> #5.29/D:171 #5.30/E:171 #5.31/F:171 #5.32/G:171 #5.33/H:171 #5.34/I:171
> #5.35/J:171 #5.36/K:171 #5.37/L:171 #5.38/M:171 #5.39/N:171 #5.40/O:171
> #5.41/P:171 #5.42/Q:171 #5.43/R:171 #5.44/S:171 #5.45/T:171 #5.46/U:171
> #5.47/V:171 #5.48/W:171 #5.49/X:171 #5.50/Y:171 #5.51/Z:171 #5.52/a:171
> #5.53/b:171 #5.54/c:171 #5.55/d:171 #5.56/e:171 #5.57/f:171 #5.58/g:171
> #5.59/h:171 #5.60/i:171 #5.61/j:171 #5.62/k:171 #5.63/l:171 #5.64/m:171
> #5.65/n:171 #5.66/o:171 #5.67/p:171 #5.68/q:171 #5.69/r:171 #5.70/s:171
> #5.71/t:171 #5.72/u:171 #5.73/v:171 #5.74/w:171 #5.75/x:171 #5.76/y:171
> #5.77/z:171
539 atoms, 462 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [171] RMSD: 169.734
> color sel red
> select clear
> select #5.64/m:171
7 atoms, 6 bonds, 1 residue, 1 model selected
> color zone #6 near sel distance 6.8
> color zone #6 near sel distance 8
> color zone #6 near sel distance 9
> color zone #6 near sel distance 9.1
> color zone #6 near sel distance 9.2
> color zone #6 near sel distance 9.3
> color zone #6 near sel distance 9.4
> color zone #6 near sel distance 9.5
> color zone #6 near sel distance 9.6
> color zone #6 near sel distance 9.7
> color zone #6 near sel distance 9.8
> color zone #6 near sel distance 9.9
> color zone #6 near sel distance 10
> color zone #6 near sel distance 11
> volume splitbyzone #6
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 0 as #13.1, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1 as #13.2, grid
size 143,142,360, pixel 1.07, shown at level 0.5, step 1, values float32
> close #13.1
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> hide #!5 models
> select subtract #5
Nothing selected
Segmenting J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone 1, density
threshold 0.500000
Showing 27 region surfaces
43 watershed regions, grouped to 27 regions
Showing J1272_Td_DFlaB3_3.51A_sheath_emhanced_map zone 1.seg - 27 regions, 27
surfaces
> select clear
> select add #14
28 models selected
> ui mousemode right "translate selected models"
> view matrix models #14,1,0,0,0.51667,0,1,0,0.7047,0,0,1,-0.15409
> view matrix models #14,1,0,0,0.32612,0,1,0,1.2029,0,0,1,-0.40355
> view matrix models #14,1,0,0,0.21953,0,1,0,1.169,0,0,1,-0.41482
> ui mousemode right select
> select clear
> select #14.1
1 model selected
Grouped 26 regions
> select clear
> select #14.1
1 model selected
Saving 1 regions to mrc file...
Opened T171_glycan.mrc as #20, grid size 10,12,11, pixel 1.07, shown at step
1, values float32
Wrote T171_glycan.mrc
> select clear
> close #13
> close #14
> color #20 #ff1721ff models
> volume #20 level 0.055
> show #!19 models
> show #!18 models
> show #!17 models
> show #!15 models
> show #!5 models
> show #!6 models
> color single #6
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
Alignment identifier is 1
> select clear
> rename #16 id #13d
Invalid "id" argument: Expected an integer
> rename #16 id #13
> rename #15 id #16
> show #13 models
> hide #13 models
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [115] RMSD: 167.880
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 167.782
> color sel purple
> color sel magenta
> select #5.1/0:137 #5.2/1:137 #5.3/2:137 #5.4/3:137 #5.5/4:137 #5.6/5:137
> #5.7/6:137 #5.8/7:137 #5.9/8:137 #5.10/9:137 #5.11/AA:137 #5.12/AB:137
> #5.13/AC:137 #5.14/AD:137 #5.15/AE:137 #5.16/AF:137 #5.17/AG:137
> #5.18/AH:137 #5.19/AI:137 #5.20/AJ:137 #5.21/AK:137 #5.22/AL:137
> #5.23/AM:137 #5.24/AN:137 #5.25/AO:137 #5.26/AP:137 #5.27/B:137 #5.28/C:137
> #5.29/D:137 #5.30/E:137 #5.31/F:137 #5.32/G:137 #5.33/H:137 #5.34/I:137
> #5.35/J:137 #5.36/K:137 #5.37/L:137 #5.38/M:137 #5.39/N:137 #5.40/O:137
> #5.41/P:137 #5.42/Q:137 #5.43/R:137 #5.44/S:137 #5.45/T:137 #5.46/U:137
> #5.47/V:137 #5.48/W:137 #5.49/X:137 #5.50/Y:137 #5.51/Z:137 #5.52/a:137
> #5.53/b:137 #5.54/c:137 #5.55/d:137 #5.56/e:137 #5.57/f:137 #5.58/g:137
> #5.59/h:137 #5.60/i:137 #5.61/j:137 #5.62/k:137 #5.63/l:137 #5.64/m:137
> #5.65/n:137 #5.66/o:137 #5.67/p:137 #5.68/q:137 #5.69/r:137 #5.70/s:137
> #5.71/t:137 #5.72/u:137 #5.73/v:137 #5.74/w:137 #5.75/x:137 #5.76/y:137
> #5.77/z:137
539 atoms, 462 bonds, 77 residues, 77 models selected
> select #5.1/0:137 #5.2/1:137 #5.3/2:137 #5.4/3:137 #5.5/4:137 #5.6/5:137
> #5.7/6:137 #5.8/7:137 #5.9/8:137 #5.10/9:137 #5.11/AA:137 #5.12/AB:137
> #5.13/AC:137 #5.14/AD:137 #5.15/AE:137 #5.16/AF:137 #5.17/AG:137
> #5.18/AH:137 #5.19/AI:137 #5.20/AJ:137 #5.21/AK:137 #5.22/AL:137
> #5.23/AM:137 #5.24/AN:137 #5.25/AO:137 #5.26/AP:137 #5.27/B:137 #5.28/C:137
> #5.29/D:137 #5.30/E:137 #5.31/F:137 #5.32/G:137 #5.33/H:137 #5.34/I:137
> #5.35/J:137 #5.36/K:137 #5.37/L:137 #5.38/M:137 #5.39/N:137 #5.40/O:137
> #5.41/P:137 #5.42/Q:137 #5.43/R:137 #5.44/S:137 #5.45/T:137 #5.46/U:137
> #5.47/V:137 #5.48/W:137 #5.49/X:137 #5.50/Y:137 #5.51/Z:137 #5.52/a:137
> #5.53/b:137 #5.54/c:137 #5.55/d:137 #5.56/e:137 #5.57/f:137 #5.58/g:137
> #5.59/h:137 #5.60/i:137 #5.61/j:137 #5.62/k:137 #5.63/l:137 #5.64/m:137
> #5.65/n:137 #5.66/o:137 #5.67/p:137 #5.68/q:137 #5.69/r:137 #5.70/s:137
> #5.71/t:137 #5.72/u:137 #5.73/v:137 #5.74/w:137 #5.75/x:137 #5.76/y:137
> #5.77/z:137
539 atoms, 462 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [137] RMSD: 169.412
> color sel cyan
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [152] RMSD: 170.337
> color sel forest green
> color sel cornflower blue
> select clear
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [152] RMSD: 170.337
> color sel cornflower blue
> color sel blue
> select clear
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [152] RMSD: 170.337
> color sel medium blue
> select clear
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [152] RMSD: 170.337
> color sel light sea green
> select clear
> select #5.1/0:171 #5.2/1:171 #5.3/2:171 #5.4/3:171 #5.5/4:171 #5.6/5:171
> #5.7/6:171 #5.8/7:171 #5.9/8:171 #5.10/9:171 #5.11/AA:171 #5.12/AB:171
> #5.13/AC:171 #5.14/AD:171 #5.15/AE:171 #5.16/AF:171 #5.17/AG:171
> #5.18/AH:171 #5.19/AI:171 #5.20/AJ:171 #5.21/AK:171 #5.22/AL:171
> #5.23/AM:171 #5.24/AN:171 #5.25/AO:171 #5.26/AP:171 #5.27/B:171 #5.28/C:171
> #5.29/D:171 #5.30/E:171 #5.31/F:171 #5.32/G:171 #5.33/H:171 #5.34/I:171
> #5.35/J:171 #5.36/K:171 #5.37/L:171 #5.38/M:171 #5.39/N:171 #5.40/O:171
> #5.41/P:171 #5.42/Q:171 #5.43/R:171 #5.44/S:171 #5.45/T:171 #5.46/U:171
> #5.47/V:171 #5.48/W:171 #5.49/X:171 #5.50/Y:171 #5.51/Z:171 #5.52/a:171
> #5.53/b:171 #5.54/c:171 #5.55/d:171 #5.56/e:171 #5.57/f:171 #5.58/g:171
> #5.59/h:171 #5.60/i:171 #5.61/j:171 #5.62/k:171 #5.63/l:171 #5.64/m:171
> #5.65/n:171 #5.66/o:171 #5.67/p:171 #5.68/q:171 #5.69/r:171 #5.70/s:171
> #5.71/t:171 #5.72/u:171 #5.73/v:171 #5.74/w:171 #5.75/x:171 #5.76/y:171
> #5.77/z:171
539 atoms, 462 bonds, 77 residues, 77 models selected
> select #5.1/0:171 #5.2/1:171 #5.3/2:171 #5.4/3:171 #5.5/4:171 #5.6/5:171
> #5.7/6:171 #5.8/7:171 #5.9/8:171 #5.10/9:171 #5.11/AA:171 #5.12/AB:171
> #5.13/AC:171 #5.14/AD:171 #5.15/AE:171 #5.16/AF:171 #5.17/AG:171
> #5.18/AH:171 #5.19/AI:171 #5.20/AJ:171 #5.21/AK:171 #5.22/AL:171
> #5.23/AM:171 #5.24/AN:171 #5.25/AO:171 #5.26/AP:171 #5.27/B:171 #5.28/C:171
> #5.29/D:171 #5.30/E:171 #5.31/F:171 #5.32/G:171 #5.33/H:171 #5.34/I:171
> #5.35/J:171 #5.36/K:171 #5.37/L:171 #5.38/M:171 #5.39/N:171 #5.40/O:171
> #5.41/P:171 #5.42/Q:171 #5.43/R:171 #5.44/S:171 #5.45/T:171 #5.46/U:171
> #5.47/V:171 #5.48/W:171 #5.49/X:171 #5.50/Y:171 #5.51/Z:171 #5.52/a:171
> #5.53/b:171 #5.54/c:171 #5.55/d:171 #5.56/e:171 #5.57/f:171 #5.58/g:171
> #5.59/h:171 #5.60/i:171 #5.61/j:171 #5.62/k:171 #5.63/l:171 #5.64/m:171
> #5.65/n:171 #5.66/o:171 #5.67/p:171 #5.68/q:171 #5.69/r:171 #5.70/s:171
> #5.71/t:171 #5.72/u:171 #5.73/v:171 #5.74/w:171 #5.75/x:171 #5.76/y:171
> #5.77/z:171
539 atoms, 462 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [171] RMSD: 169.734
> color sel lime
> select clear
> color #20 #a9fab5ff models
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:152 #5.2/1:152 #5.3/2:152 #5.4/3:152 #5.5/4:152 #5.6/5:152
> #5.7/6:152 #5.8/7:152 #5.9/8:152 #5.10/9:152 #5.11/AA:152 #5.12/AB:152
> #5.13/AC:152 #5.14/AD:152 #5.15/AE:152 #5.16/AF:152 #5.17/AG:152
> #5.18/AH:152 #5.19/AI:152 #5.20/AJ:152 #5.21/AK:152 #5.22/AL:152
> #5.23/AM:152 #5.24/AN:152 #5.25/AO:152 #5.26/AP:152 #5.27/B:152 #5.28/C:152
> #5.29/D:152 #5.30/E:152 #5.31/F:152 #5.32/G:152 #5.33/H:152 #5.34/I:152
> #5.35/J:152 #5.36/K:152 #5.37/L:152 #5.38/M:152 #5.39/N:152 #5.40/O:152
> #5.41/P:152 #5.42/Q:152 #5.43/R:152 #5.44/S:152 #5.45/T:152 #5.46/U:152
> #5.47/V:152 #5.48/W:152 #5.49/X:152 #5.50/Y:152 #5.51/Z:152 #5.52/a:152
> #5.53/b:152 #5.54/c:152 #5.55/d:152 #5.56/e:152 #5.57/f:152 #5.58/g:152
> #5.59/h:152 #5.60/i:152 #5.61/j:152 #5.62/k:152 #5.63/l:152 #5.64/m:152
> #5.65/n:152 #5.66/o:152 #5.67/p:152 #5.68/q:152 #5.69/r:152 #5.70/s:152
> #5.71/t:152 #5.72/u:152 #5.73/v:152 #5.74/w:152 #5.75/x:152 #5.76/y:152
> #5.77/z:152
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [152] RMSD: 170.337
> color #19 #58ac5aff models
> select #5.1/0:137 #5.2/1:137 #5.3/2:137 #5.4/3:137 #5.5/4:137 #5.6/5:137
> #5.7/6:137 #5.8/7:137 #5.9/8:137 #5.10/9:137 #5.11/AA:137 #5.12/AB:137
> #5.13/AC:137 #5.14/AD:137 #5.15/AE:137 #5.16/AF:137 #5.17/AG:137
> #5.18/AH:137 #5.19/AI:137 #5.20/AJ:137 #5.21/AK:137 #5.22/AL:137
> #5.23/AM:137 #5.24/AN:137 #5.25/AO:137 #5.26/AP:137 #5.27/B:137 #5.28/C:137
> #5.29/D:137 #5.30/E:137 #5.31/F:137 #5.32/G:137 #5.33/H:137 #5.34/I:137
> #5.35/J:137 #5.36/K:137 #5.37/L:137 #5.38/M:137 #5.39/N:137 #5.40/O:137
> #5.41/P:137 #5.42/Q:137 #5.43/R:137 #5.44/S:137 #5.45/T:137 #5.46/U:137
> #5.47/V:137 #5.48/W:137 #5.49/X:137 #5.50/Y:137 #5.51/Z:137 #5.52/a:137
> #5.53/b:137 #5.54/c:137 #5.55/d:137 #5.56/e:137 #5.57/f:137 #5.58/g:137
> #5.59/h:137 #5.60/i:137 #5.61/j:137 #5.62/k:137 #5.63/l:137 #5.64/m:137
> #5.65/n:137 #5.66/o:137 #5.67/p:137 #5.68/q:137 #5.69/r:137 #5.70/s:137
> #5.71/t:137 #5.72/u:137 #5.73/v:137 #5.74/w:137 #5.75/x:137 #5.76/y:137
> #5.77/z:137
539 atoms, 462 bonds, 77 residues, 77 models selected
> select #5.1/0:137 #5.2/1:137 #5.3/2:137 #5.4/3:137 #5.5/4:137 #5.6/5:137
> #5.7/6:137 #5.8/7:137 #5.9/8:137 #5.10/9:137 #5.11/AA:137 #5.12/AB:137
> #5.13/AC:137 #5.14/AD:137 #5.15/AE:137 #5.16/AF:137 #5.17/AG:137
> #5.18/AH:137 #5.19/AI:137 #5.20/AJ:137 #5.21/AK:137 #5.22/AL:137
> #5.23/AM:137 #5.24/AN:137 #5.25/AO:137 #5.26/AP:137 #5.27/B:137 #5.28/C:137
> #5.29/D:137 #5.30/E:137 #5.31/F:137 #5.32/G:137 #5.33/H:137 #5.34/I:137
> #5.35/J:137 #5.36/K:137 #5.37/L:137 #5.38/M:137 #5.39/N:137 #5.40/O:137
> #5.41/P:137 #5.42/Q:137 #5.43/R:137 #5.44/S:137 #5.45/T:137 #5.46/U:137
> #5.47/V:137 #5.48/W:137 #5.49/X:137 #5.50/Y:137 #5.51/Z:137 #5.52/a:137
> #5.53/b:137 #5.54/c:137 #5.55/d:137 #5.56/e:137 #5.57/f:137 #5.58/g:137
> #5.59/h:137 #5.60/i:137 #5.61/j:137 #5.62/k:137 #5.63/l:137 #5.64/m:137
> #5.65/n:137 #5.66/o:137 #5.67/p:137 #5.68/q:137 #5.69/r:137 #5.70/s:137
> #5.71/t:137 #5.72/u:137 #5.73/v:137 #5.74/w:137 #5.75/x:137 #5.76/y:137
> #5.77/z:137
539 atoms, 462 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [137] RMSD: 169.412
> color #18 #9bccffff models
> color #18 #41feffff models
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 167.782
> color #17 #fc5fffff models
> color #17 #ff4bf9ff models
> select clear
> select add #16
2 models selected
> select #5.1/0:98 #5.2/1:98 #5.3/2:98 #5.4/3:98 #5.5/4:98 #5.6/5:98 #5.7/6:98
> #5.8/7:98 #5.9/8:98 #5.10/9:98 #5.11/AA:98 #5.12/AB:98 #5.13/AC:98
> #5.14/AD:98 #5.15/AE:98 #5.16/AF:98 #5.17/AG:98 #5.18/AH:98 #5.19/AI:98
> #5.20/AJ:98 #5.21/AK:98 #5.22/AL:98 #5.23/AM:98 #5.24/AN:98 #5.25/AO:98
> #5.26/AP:98 #5.27/B:98 #5.28/C:98 #5.29/D:98 #5.30/E:98 #5.31/F:98
> #5.32/G:98 #5.33/H:98 #5.34/I:98 #5.35/J:98 #5.36/K:98 #5.37/L:98 #5.38/M:98
> #5.39/N:98 #5.40/O:98 #5.41/P:98 #5.42/Q:98 #5.43/R:98 #5.44/S:98 #5.45/T:98
> #5.46/U:98 #5.47/V:98 #5.48/W:98 #5.49/X:98 #5.50/Y:98 #5.51/Z:98 #5.52/a:98
> #5.53/b:98 #5.54/c:98 #5.55/d:98 #5.56/e:98 #5.57/f:98 #5.58/g:98 #5.59/h:98
> #5.60/i:98 #5.61/j:98 #5.62/k:98 #5.63/l:98 #5.64/m:98 #5.65/n:98 #5.66/o:98
> #5.67/p:98 #5.68/q:98 #5.69/r:98 #5.70/s:98 #5.71/t:98 #5.72/u:98 #5.73/v:98
> #5.74/w:98 #5.75/x:98 #5.76/y:98 #5.77/z:98
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:98 #5.2/1:98 #5.3/2:98 #5.4/3:98 #5.5/4:98 #5.6/5:98 #5.7/6:98
> #5.8/7:98 #5.9/8:98 #5.10/9:98 #5.11/AA:98 #5.12/AB:98 #5.13/AC:98
> #5.14/AD:98 #5.15/AE:98 #5.16/AF:98 #5.17/AG:98 #5.18/AH:98 #5.19/AI:98
> #5.20/AJ:98 #5.21/AK:98 #5.22/AL:98 #5.23/AM:98 #5.24/AN:98 #5.25/AO:98
> #5.26/AP:98 #5.27/B:98 #5.28/C:98 #5.29/D:98 #5.30/E:98 #5.31/F:98
> #5.32/G:98 #5.33/H:98 #5.34/I:98 #5.35/J:98 #5.36/K:98 #5.37/L:98 #5.38/M:98
> #5.39/N:98 #5.40/O:98 #5.41/P:98 #5.42/Q:98 #5.43/R:98 #5.44/S:98 #5.45/T:98
> #5.46/U:98 #5.47/V:98 #5.48/W:98 #5.49/X:98 #5.50/Y:98 #5.51/Z:98 #5.52/a:98
> #5.53/b:98 #5.54/c:98 #5.55/d:98 #5.56/e:98 #5.57/f:98 #5.58/g:98 #5.59/h:98
> #5.60/i:98 #5.61/j:98 #5.62/k:98 #5.63/l:98 #5.64/m:98 #5.65/n:98 #5.66/o:98
> #5.67/p:98 #5.68/q:98 #5.69/r:98 #5.70/s:98 #5.71/t:98 #5.72/u:98 #5.73/v:98
> #5.74/w:98 #5.75/x:98 #5.76/y:98 #5.77/z:98
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [98] RMSD: 166.557
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [115] RMSD: 167.880
> hide #!17 models
> hide #!18 models
> hide #!19 models
> hide #!20 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #14, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #15, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #21, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #14 id #200
> rename #15 id #200
> rename #200.1 id #200.1.1
> hide #!200 models
> show #!200 models
> hide #!200 models
> show #!200 models
> hide #!200.1 models
> hide #200.1.1 models
> show #200.1.1 models
> rename #200 id #200.
Invalid "id" argument: Expected an integer
> rename #200 id #200.1
> close #200.1.1.1#200#200.1#200.1.1#200.1.1.2
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #14, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #15, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> combine #14-16
No structures specified
> rename #14-16 id #200
> hide #!200.2 models
> hide #!200.1 models
> hide #!200.3 models
> show #!200.2 models
> show #!200.1 models
> rename #21 id #200
> show #!200.3 models
> volume #200.4 level 0.055
> volume #200.1 level 0.055
> volume #200.2 level 0.055
> select add #200.1
462 atoms, 385 bonds, 77 residues, 79 models selected
> select subtract #200.1
462 atoms, 385 bonds, 77 residues, 77 models selected
> select add #200.1
462 atoms, 385 bonds, 77 residues, 79 models selected
> ui mousemode right "translate selected models"
> view matrix models
> 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> view matrix models
> 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2156,-0.0036582,0.99999,105.59,#5.46,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.47,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.48,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.49,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.50,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.51,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.52,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.53,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.54,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.55,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.56,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.57,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.58,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.59,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.60,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.61,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.62,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.63,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.64,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.65,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.66,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.67,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.68,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.69,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.70,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.71,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.72,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.73,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.74,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.75,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.76,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#5.77,0.99885,0.04779,0.0023879,-9.5768,-0.047798,0.99885,0.0035481,10.124,-0.0022156,-0.0036582,0.99999,105.59,#200.1,1,0,0,0.0042405,0,1,0,0.19501,0,0,1,0.034986
> undo
> select add #200
462 atoms, 385 bonds, 77 residues, 86 models selected
> select subtract #200
462 atoms, 385 bonds, 77 residues, 77 models selected
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
> select add #200.1
2 models selected
> view matrix models #200.1,1,0,0,0.077297,0,1,0,0.52449,0,0,1,0.51625
> view matrix models #200.1,1,0,0,0.67563,0,1,0,1.324,0,0,1,52.122
> select subtract #200.1
Nothing selected
> select add #200.1
2 models selected
> select add #200.2
4 models selected
> view matrix models
> #200.1,1,0,0,0.6735,0,1,0,2.3498,0,0,1,51.928,#200.2,1,0,0,-0.0021254,0,1,0,1.0259,0,0,1,-0.19425
> undo
> select add #200.2
2 models selected
> view matrix models #200.2,1,0,0,-0.60567,0,1,0,-1.166,0,0,1,-52.235
> ui tool show "Fit in Map"
> fitmap #200.2 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9777, correlation about mean = 0.8022, overlap = 32.78
steps = 44, shift = 0.691, angle = 9.14 degrees
Position of S115_glycan.mrc (#200.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99622820 -0.06463475 0.05789405 -0.33489106
0.05849538 0.99305283 0.10209985 -32.20364199
-0.06409105 -0.09832821 0.99308806 -23.24551111
Axis -0.75639798 0.46036113 0.46468239
Axis point 0.00000000 -130.00292727 192.15885784
Rotation angle (degrees) 7.61341651
Shift along axis -25.37377382
> select subtract #200.2
Nothing selected
> select add #200.4
2 models selected
> view matrix models #200.4,1,0,0,-0.61367,0,1,0,-1.1121,0,0,1,-52.926
> view matrix models #200.4,1,0,0,-1.2077,0,1,0,-4.0453,0,0,1,-104.14
> select subtract #200.4
Nothing selected
> select add #200.1
2 models selected
> view matrix models #200.1,1,0,0,0.67313,0,1,0,2.1033,0,0,1,51.898
> select subtract #200.1
Nothing selected
> hide #!6 models
> select add #200.1
3 models selected
> view matrix models #200.1,1,0,0,0.88867,0,1,0,2.4125,0,0,1,52.634
> select subtract #200.1
Nothing selected
> select add #200.4
3 models selected
> view matrix models #200.4,1,0,0,-0.55118,0,1,0,-4.2958,0,0,1,-103.35
> select add #200.3
5 models selected
> select subtract #200.4
2 models selected
> select add #200.2
5 models selected
> select subtract #200.3
3 models selected
> select subtract #200.2
Nothing selected
> select add #200.4
3 models selected
> view matrix models #200.4,1,0,0,-0.73365,0,1,0,-4.3614,0,0,1,-103.79
> select subtract #200.4
Nothing selected
> select add #200.1
3 models selected
> view matrix models #200.1,1,0,0,0.52249,0,1,0,2.5066,0,0,1,51.909
> select subtract #200.1
Nothing selected
> show #!6 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #14, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #15, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #21, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #14-16 id #200
> rename #21 id #200
> select add #200.5
2 models selected
> volume #200.8 level 0.055
> volume #200.7 level 0.055
> volume #200.6 level 0.055
> volume #200.5 level 0.055
> select subtract #200.5
Nothing selected
> select add #200.5
2 models selected
> view matrix models #200.5,1,0,0,2.8881,0,1,0,-28.411,0,0,1,81.385
> ui mousemode right "rotate selected models"
> view matrix models
> #200.5,0.989,-0.026466,0.14555,-25.866,0.011975,0.99496,0.099543,-53.232,-0.14746,-0.096704,0.98433,123.78
> view matrix models
> #200.5,0.90768,-0.41607,0.054779,82.658,0.40812,0.90557,0.11566,-93.139,-0.09773,-0.082628,0.99178,112.55
> view matrix models
> #200.5,0.85277,-0.51512,0.086281,101.6,0.49536,0.85004,0.17902,-109.51,-0.16556,-0.10992,0.98005,129.82
> ui mousemode right "translate selected models"
> view matrix models
> #200.5,0.85277,-0.51512,0.086281,108.56,0.49536,0.85004,0.17902,-112.54,-0.16556,-0.10992,0.98005,130.87
> view matrix models
> #200.5,0.85277,-0.51512,0.086281,107.54,0.49536,0.85004,0.17902,-109.46,-0.16556,-0.10992,0.98005,131.54
> view matrix models
> #200.5,0.85277,-0.51512,0.086281,107.27,0.49536,0.85004,0.17902,-109.48,-0.16556,-0.10992,0.98005,130.77
> view matrix models
> #200.5,0.85277,-0.51512,0.086281,106.7,0.49536,0.85004,0.17902,-109.01,-0.16556,-0.10992,0.98005,130.54
> ui mousemode right "rotate selected models"
> view matrix models
> #200.5,0.85349,-0.52058,0.023389,122.94,0.51552,0.85005,0.10801,-94.472,-0.076108,-0.080125,0.99388,109.36
> view matrix models
> #200.5,0.83298,-0.55257,0.028536,130.65,0.54643,0.82964,0.11446,-96.246,-0.086921,-0.079748,0.99302,110.95
> ui mousemode right "translate selected models"
> view matrix models
> #200.5,0.83298,-0.55257,0.028536,130.87,0.54643,0.82964,0.11446,-96.398,-0.086921,-0.079748,0.99302,111.33
> select subtract #200.5
Nothing selected
> select add #200.6
2 models selected
> view matrix models #200.6,1,0,0,-15.435,0,1,0,18.728,0,0,1,22.652
> view matrix models #200.6,1,0,0,-31.215,0,1,0,-31.051,0,0,1,34.225
> view matrix models #200.6,1,0,0,-27.998,0,1,0,-40.87,0,0,1,27.913
> select add #200.7
4 models selected
> select add #200.8
6 models selected
> select subtract #200.6
4 models selected
> view matrix models
> #200.7,1,0,0,9.9284,0,1,0,-28.79,0,0,1,30.198,#200.8,1,0,0,9.9284,0,1,0,-28.79,0,0,1,30.198
> view matrix models
> #200.7,1,0,0,2.3965,0,1,0,-53.204,0,0,1,29.295,#200.8,1,0,0,2.3965,0,1,0,-53.204,0,0,1,29.295
> view matrix models
> #200.7,1,0,0,-11.783,0,1,0,-31.513,0,0,1,27.739,#200.8,1,0,0,-11.783,0,1,0,-31.513,0,0,1,27.739
> select add #200.6
6 models selected
> view matrix models
> #200.6,1,0,0,-22.148,0,1,0,-48.632,0,0,1,50.363,#200.7,1,0,0,-5.9326,0,1,0,-39.275,0,0,1,50.188,#200.8,1,0,0,-5.9326,0,1,0,-39.275,0,0,1,50.188
> view matrix models
> #200.6,1,0,0,-22.608,0,1,0,-46.056,0,0,1,84.714,#200.7,1,0,0,-6.3923,0,1,0,-36.699,0,0,1,84.54,#200.8,1,0,0,-6.3923,0,1,0,-36.699,0,0,1,84.54
> view matrix models
> #200.6,1,0,0,-23.532,0,1,0,-38.475,0,0,1,81.134,#200.7,1,0,0,-7.3168,0,1,0,-29.118,0,0,1,80.96,#200.8,1,0,0,-7.3168,0,1,0,-29.118,0,0,1,80.96
> view matrix models
> #200.6,1,0,0,-13.492,0,1,0,-41.392,0,0,1,86.056,#200.7,1,0,0,2.7232,0,1,0,-32.035,0,0,1,85.882,#200.8,1,0,0,2.7232,0,1,0,-32.035,0,0,1,85.882
> view matrix models
> #200.6,1,0,0,-13.452,0,1,0,-39.078,0,0,1,80.945,#200.7,1,0,0,2.7638,0,1,0,-29.722,0,0,1,80.77,#200.8,1,0,0,2.7638,0,1,0,-29.722,0,0,1,80.77
> view matrix models
> #200.6,1,0,0,-8.5676,0,1,0,-38.092,0,0,1,82.005,#200.7,1,0,0,7.648,0,1,0,-28.736,0,0,1,81.83,#200.8,1,0,0,7.648,0,1,0,-28.736,0,0,1,81.83
> fitmap #200.6 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99960082 0.02496959 -0.01321835 -12.09549229
-0.02511298 0.99962633 -0.01079557 -32.68162997
0.01294385 0.01112321 0.99985435 77.53435590
Axis 0.36165679 -0.43167260 -0.82635533
Axis point -2230.37137526 -338.26700420 0.00000000
Rotation angle (degrees) 1.73651638
Shift along axis -54.33758064
> fitmap #200.6 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99960082 0.02496959 -0.01321835 -12.09549229
-0.02511298 0.99962633 -0.01079557 -32.68162997
0.01294385 0.01112321 0.99985435 77.53435590
Axis 0.36165679 -0.43167260 -0.82635533
Axis point -2230.37137526 -338.26700420 0.00000000
Rotation angle (degrees) 1.73651638
Shift along axis -54.33758064
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -81.74049835
-0.55256673 0.82964466 -0.07974802 127.76104574
0.02853626 0.11445794 0.99301815 -26.42591364
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 169.04144573 200.81056795 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -1.41116808
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -81.74049835
-0.55256673 0.82964466 -0.07974802 127.76104574
0.02853626 0.11445794 0.99301815 -26.42591364
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 169.04144573 200.81056795 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -1.41116808
> view matrix models
> #200.6,1,0,0,-9.2101,0,1,0,-37.733,0,0,1,83.182,#200.7,1,0,0,7.0055,0,1,0,-28.377,0,0,1,83.007,#200.8,1,0,0,7.0055,0,1,0,-28.377,0,0,1,83.007
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -82.18183773
-0.55256673 0.82964466 -0.07974802 128.32003544
0.02853626 0.11445794 0.99301815 -25.23419128
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 169.63306464 201.38688817 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -2.71239280
> select add #200.5
8 models selected
> select subtract #200.5
6 models selected
> view matrix models
> #200.6,1,0,0,-9.4824,0,1,0,-36.895,0,0,1,81.435,#200.7,1,0,0,6.7331,0,1,0,-27.539,0,0,1,81.261,#200.8,1,0,0,6.7331,0,1,0,-27.539,0,0,1,81.261
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -81.79897487
-0.55256673 0.82964466 -0.07974802 129.30500805
0.02853626 0.11445794 0.99301815 -26.88043291
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 171.58718882 201.78319490 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -1.13496163
> view matrix models
> #200.6,1,0,0,-8.0808,0,1,0,-36.919,0,0,1,82.781,#200.7,1,0,0,8.1348,0,1,0,-27.562,0,0,1,82.606,#200.8,1,0,0,8.1348,0,1,0,-27.562,0,0,1,82.606
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -80.76122520
-0.55256673 0.82964466 -0.07974802 128.40367976
0.02853626 0.11445794 0.99301815 -25.50704917
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 170.54473039 199.22557782 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -2.20783554
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -80.76122520
-0.55256673 0.82964466 -0.07974802 128.40367976
0.02853626 0.11445794 0.99301815 -25.50704917
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 170.54473039 199.22557782 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -2.20783554
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -80.76122520
-0.55256673 0.82964466 -0.07974802 128.40367976
0.02853626 0.11445794 0.99301815 -25.50704917
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 170.54473039 199.22557782 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -2.20783554
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -80.76122520
-0.55256673 0.82964466 -0.07974802 128.40367976
0.02853626 0.11445794 0.99301815 -25.50704917
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 170.54473039 199.22557782 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -2.20783554
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.83298001 0.54643308 -0.08692060 -80.76122520
-0.55256673 0.82964466 -0.07974802 128.40367976
0.02853626 0.11445794 0.99301815 -25.50704917
Axis 0.17309165 -0.10290425 -0.97951519
Axis point 170.54473039 199.22557782 0.00000000
Rotation angle (degrees) 34.12440934
Shift along axis -2.20783554
> ui mousemode right "rotate selected models"
> view matrix models
> #200.6,0.99991,-0.0086416,0.010569,-8.919,0.0085221,0.9999,0.0113,-40.86,-0.010666,-0.011209,0.99988,86.557,#200.7,0.99991,-0.0086416,0.010569,7.2124,0.0085221,0.9999,0.0113,-31.368,-0.010666,-0.011209,0.99988,86.105,#200.8,0.99991,-0.0086416,0.010569,7.2124,0.0085221,0.9999,0.0113,-31.368,-0.010666,-0.011209,0.99988,86.105
> select subtract #200.7
4 models selected
> select subtract #200.8
2 models selected
> select subtract #200.6
Nothing selected
> select add #200.6
2 models selected
> select add #200.8
4 models selected
> fitmap #200.8 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9999, correlation about mean = 0.9992, overlap = 45.4
steps = 68, shift = 0.292, angle = 32.2 degrees
Position of S115_glycan.mrc (#200.8) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.99973175 0.01975357 -0.01209196 -0.85837671
-0.01989888 0.99972977 -0.01201704 5.65548511
0.01185132 0.01225443 0.99985467 -3.93905890
Axis 0.46413159 -0.45785567 -0.75825461
Axis point 283.54644320 47.28152952 0.00000000
Rotation angle (degrees) 1.49829433
Shift along axis -0.00098613
> fitmap #200.7 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9999, correlation about mean = 0.9992, overlap = 45.4
steps = 68, shift = 0.292, angle = 32.2 degrees
Position of S115_glycan.mrc (#200.7) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.99973175 0.01975357 -0.01209196 -0.85837671
-0.01989888 0.99972977 -0.01201704 5.65548511
0.01185132 0.01225443 0.99985467 -3.93905890
Axis 0.46413159 -0.45785567 -0.75825461
Axis point 283.54644320 47.28152952 0.00000000
Rotation angle (degrees) 1.49829433
Shift along axis -0.00098613
> select subtract #200.8
2 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #200.6,0.99991,-0.0086416,0.010569,-1.0809,0.0085221,0.9999,0.0113,-39.753,-0.010666,-0.011209,0.99988,95.127
> view matrix models
> #200.6,0.99991,-0.0086416,0.010569,5.4473,0.0085221,0.9999,0.0113,-32.254,-0.010666,-0.011209,0.99988,83.253
> view matrix models
> #200.6,0.99991,-0.0086416,0.010569,6.8459,0.0085221,0.9999,0.0113,-31.496,-0.010666,-0.011209,0.99988,86.495
> fitmap #200.6 inMap #200.5
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9998, correlation about mean = 0.9987, overlap = 45.22
steps = 72, shift = 0.512, angle = 32 degrees
Position of S115_glycan.mrc (#200.6) relative to S115_glycan.mrc (#200.5)
coordinates:
Matrix rotation and translation
0.99957615 0.02364852 -0.01697838 -0.41728233
-0.02382974 0.99966034 -0.01055198 5.86098519
0.01672308 0.01095210 0.99980017 -4.34561576
Axis 0.34646158 -0.54297904 -0.76494322
Axis point 245.57470328 22.00533181 -0.00000000
Rotation angle (degrees) 1.77839412
Shift along axis -0.00281512
> select add #200.5
4 models selected
> select subtract #200.6
2 models selected
> select subtract #200.5
Nothing selected
> select add #200.6
2 models selected
> view matrix models
> #200.6,0.84627,-0.53237,0.020219,121.59,0.52835,0.84354,0.096403,-98.474,-0.068377,-0.070901,0.99514,55.907
> view matrix models
> #200.6,0.84627,-0.53237,0.020219,125.58,0.52835,0.84354,0.096403,-99.852,-0.068377,-0.070901,0.99514,53.705
> view matrix models
> #200.6,0.84627,-0.53237,0.020219,127.13,0.52835,0.84354,0.096403,-93.251,-0.068377,-0.070901,0.99514,54.082
> view matrix models
> #200.6,0.84627,-0.53237,0.020219,127.56,0.52835,0.84354,0.096403,-93.312,-0.068377,-0.070901,0.99514,54.328
> select subtract #200.6
Nothing selected
> select add #200.7
2 models selected
> view matrix models
> #200.7,0.84409,-0.53561,0.0251,129.04,0.53113,0.84162,0.097864,-95.525,-0.073542,-0.069275,0.99488,1.8677
> select subtract #200.7
Nothing selected
> select add #200.6
2 models selected
> view matrix models
> #200.6,0.84627,-0.53237,0.020219,127.73,0.52835,0.84354,0.096403,-93.5,-0.068377,-0.070901,0.99514,53.369
> select subtract #200.6
Nothing selected
> select add #200.7
2 models selected
> view matrix models
> #200.7,0.84409,-0.53561,0.0251,129,0.53113,0.84162,0.097864,-95.481,-0.073542,-0.069275,0.99488,1.8694
> select subtract #200.7
Nothing selected
> select add #200.8
2 models selected
> view matrix models
> #200.8,0.84409,-0.53561,0.0251,131.29,0.53113,0.84162,0.097864,-98.178,-0.073542,-0.069275,0.99488,-41.27
> view matrix models
> #200.8,0.84409,-0.53561,0.0251,130.04,0.53113,0.84162,0.097864,-96.905,-0.073542,-0.069275,0.99488,-50.347
> select subtract #200.8
Nothing selected
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #14, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #14 id #200
> select add #200.9
2 models selected
> volume #200.9 level 0.055
> view matrix models #200.9,1,0,0,27.898,0,1,0,-21.796,0,0,1,-74.073
> view matrix models #200.9,1,0,0,22.745,0,1,0,-37.631,0,0,1,-75.88
> view matrix models #200.9,1,0,0,16.825,0,1,0,-29.18,0,0,1,-76.266
> view matrix models #200.9,1,0,0,14.709,0,1,0,-34.075,0,0,1,-76.545
> view matrix models #200.9,1,0,0,14.442,0,1,0,-32.743,0,0,1,-75.413
> fitmap #200.9 inMap #200.8
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 1, correlation about mean = 0.9997, overlap = 45.66
steps = 96, shift = 3.49, angle = 32 degrees
Position of S115_glycan.mrc (#200.9) relative to S115_glycan.mrc (#200.8)
coordinates:
Matrix rotation and translation
0.99988389 0.01272621 -0.00838157 -0.42223381
-0.01277436 0.99990207 -0.00571614 3.13945827
0.00830800 0.00582254 0.99994854 -2.24368598
Axis 0.35408013 -0.51214232 -0.78251997
Axis point 245.42614716 35.37226397 0.00000000
Rotation angle (degrees) 0.93361185
Shift along axis -0.00162497
> view matrix models
> #200.9,0.85104,-0.52467,0.021086,128.33,0.52113,0.84886,0.088596,-96.392,-0.064383,-0.064411,0.99584,-104.72
> view matrix models
> #200.9,0.85104,-0.52467,0.021086,128.36,0.52113,0.84886,0.088596,-96.442,-0.064383,-0.064411,0.99584,-104.92
> select subtract #200.9
Nothing selected
> color #200 #ff1721ff models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #14, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #15, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #14-16 id #200
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #14, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #15, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #14-16 id #200
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #14, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #15, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #14-16 id #200
> hide #!200.1 models
> show #!200.1 models
> hide #!200.1 models
> hide #!200.2 models
> hide #!200.3 models
> show #!200.3 models
> hide #!200.4 models
> hide #!200.5 models
> hide #!200.6 models
> hide #!200.7 models
> hide #!200.8 models
> hide #!200.9 models
> volume #200.10 level 0.055
> volume #200.11 level 0.055
> volume #200.12 level 0.055
> volume #200.13 level 0.055
> volume #200.14 level 0.055
> volume #200.15 level 0.055
> volume #200.16 level 0.055
> volume #200.17 level 0.055
> volume #200.18 level 0.055
> select add #200.10
2 models selected
> select add #200.11
4 models selected
> select add #200.12
6 models selected
> show #!200.4 models
> hide #!200.4 models
> show #!200.5 models
> hide #!200.5 models
> show #!200.6 models
> hide #!200.6 models
> show #!200.7 models
> select add #200.13
8 models selected
> view matrix models
> #200.10,1,0,0,116.23,0,1,0,-57.505,0,0,1,5.572,#200.11,1,0,0,116.23,0,1,0,-57.505,0,0,1,5.572,#200.12,1,0,0,116.23,0,1,0,-57.505,0,0,1,5.572,#200.13,1,0,0,116.23,0,1,0,-57.505,0,0,1,5.572
> view matrix models
> #200.10,1,0,0,65.066,0,1,0,-76.696,0,0,1,31.284,#200.11,1,0,0,65.066,0,1,0,-76.696,0,0,1,31.284,#200.12,1,0,0,65.066,0,1,0,-76.696,0,0,1,31.284,#200.13,1,0,0,65.066,0,1,0,-76.696,0,0,1,31.284
> view matrix models
> #200.10,1,0,0,60.069,0,1,0,-54.586,0,0,1,32.796,#200.11,1,0,0,60.069,0,1,0,-54.586,0,0,1,32.796,#200.12,1,0,0,60.069,0,1,0,-54.586,0,0,1,32.796,#200.13,1,0,0,60.069,0,1,0,-54.586,0,0,1,32.796
> view matrix models
> #200.10,1,0,0,61.339,0,1,0,-52.383,0,0,1,32.884,#200.11,1,0,0,61.339,0,1,0,-52.383,0,0,1,32.884,#200.12,1,0,0,61.339,0,1,0,-52.383,0,0,1,32.884,#200.13,1,0,0,61.339,0,1,0,-52.383,0,0,1,32.884
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.8315, correlation about mean = 0.2944, overlap = 29.28
steps = 76, shift = 2.67, angle = 47.6 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.81502919 0.33458664 0.47305306 -94.03304292
-0.53593563 0.74562897 0.39599298 -30.88344717
-0.22022811 -0.57627183 0.78702628 227.05838885
Axis -0.65793569 0.46914628 -0.58908607
Axis point 0.00000000 254.33276212 139.02865531
Rotation angle (degrees) 47.63569357
Shift along axis -86.37809439
> view matrix models
> #200.10,0.82531,0.30827,0.47311,-90.174,-0.51783,0.74729,0.41641,-37.497,-0.22518,-0.58866,0.77638,229.6,#200.11,1,0,0,59.746,0,1,0,-53.202,0,0,1,29.909,#200.12,1,0,0,59.746,0,1,0,-53.202,0,0,1,29.909,#200.13,1,0,0,59.746,0,1,0,-53.202,0,0,1,29.909
> ui mousemode right "rotate selected models"
> view matrix models
> #200.10,0.25995,0.95325,0.15409,-62.496,0.18548,-0.20589,0.96084,-78.067,0.94764,-0.22119,-0.23033,244.8,#200.11,0.58129,0.64191,-0.50004,114.42,0.54418,0.15019,0.82541,-163.66,0.60495,-0.75192,-0.26201,399.63,#200.12,0.58129,0.64191,-0.50004,114.42,0.54418,0.15019,0.82541,-163.66,0.60495,-0.75192,-0.26201,399.63,#200.13,0.58129,0.64191,-0.50004,114.42,0.54418,0.15019,0.82541,-163.66,0.60495,-0.75192,-0.26201,399.63
> view matrix models
> #200.10,-0.85522,-0.42779,-0.29255,463.96,-0.14495,0.7394,-0.65748,175.15,0.49758,-0.51988,-0.69436,476.02,#200.11,-0.97611,0.0013565,0.21727,274.21,-0.20275,0.35383,-0.91307,321.52,-0.078116,-0.93531,-0.3451,547.91,#200.12,-0.97611,0.0013565,0.21727,274.21,-0.20275,0.35383,-0.91307,321.52,-0.078116,-0.93531,-0.3451,547.91,#200.13,-0.97611,0.0013565,0.21727,274.21,-0.20275,0.35383,-0.91307,321.52,-0.078116,-0.93531,-0.3451,547.91
> view matrix models
> #200.10,-0.60688,-0.67368,0.42171,305.3,-0.65341,0.12084,-0.74729,385.28,0.45248,-0.72907,-0.51353,478.86,#200.11,-0.50903,-0.013571,0.86064,57.341,-0.85557,0.11748,-0.50418,355.84,-0.094266,-0.99298,-0.071412,494.58,#200.12,-0.50903,-0.013571,0.86064,57.341,-0.85557,0.11748,-0.50418,355.84,-0.094266,-0.99298,-0.071412,494.58,#200.13,-0.50903,-0.013571,0.86064,57.341,-0.85557,0.11748,-0.50418,355.84,-0.094266,-0.99298,-0.071412,494.58
> view matrix models
> #200.10,-0.70084,-0.13373,0.70067,145.38,-0.66518,0.47726,-0.57425,275.68,-0.25761,-0.86853,-0.42344,579.11,#200.11,-0.28815,0.55475,0.78053,-62.392,-0.67353,0.46198,-0.577,282.67,-0.68068,-0.69197,0.24053,439.9,#200.12,-0.28815,0.55475,0.78053,-62.392,-0.67353,0.46198,-0.577,282.67,-0.68068,-0.69197,0.24053,439.9,#200.13,-0.28815,0.55475,0.78053,-62.392,-0.67353,0.46198,-0.577,282.67,-0.68068,-0.69197,0.24053,439.9
> view matrix models
> #200.10,-0.33465,-0.57818,0.74412,172.43,-0.82666,0.5592,0.062725,126.71,-0.45238,-0.59414,-0.66509,610.35,#200.11,-0.10238,0.051083,0.99343,-42.097,-0.48019,0.87208,-0.094329,59.857,-0.87117,-0.4867,-0.064753,500.32,#200.12,-0.10238,0.051083,0.99343,-42.097,-0.48019,0.87208,-0.094329,59.857,-0.87117,-0.4867,-0.064753,500.32,#200.13,-0.10238,0.051083,0.99343,-42.097,-0.48019,0.87208,-0.094329,59.857,-0.87117,-0.4867,-0.064753,500.32
> view matrix models
> #200.10,-0.055153,-0.77547,0.62897,201.44,-0.83062,0.38521,0.4021,78.586,-0.5541,-0.50026,-0.66537,605.76,#200.11,0.012995,-0.28904,0.95723,16.78,-0.37654,0.88542,0.27247,-46.18,-0.92631,-0.36398,-0.097328,492.04,#200.12,0.012995,-0.28904,0.95723,16.78,-0.37654,0.88542,0.27247,-46.18,-0.92631,-0.36398,-0.097328,492.04,#200.13,0.012995,-0.28904,0.95723,16.78,-0.37654,0.88542,0.27247,-46.18,-0.92631,-0.36398,-0.097328,492.04
> view matrix models
> #200.10,-0.22377,-0.97236,0.066706,398.8,-0.9716,0.22795,0.063501,210.25,-0.076952,-0.050602,-0.99575,534.56,#200.11,-0.45287,-0.58299,0.67457,205.36,-0.70156,0.69992,0.13391,67.338,-0.5502,-0.41261,-0.72597,603.52,#200.12,-0.45287,-0.58299,0.67457,205.36,-0.70156,0.69992,0.13391,67.338,-0.5502,-0.41261,-0.72597,603.52,#200.13,-0.45287,-0.58299,0.67457,205.36,-0.70156,0.69992,0.13391,67.338,-0.5502,-0.41261,-0.72597,603.52
> ui mousemode right "translate selected models"
> view matrix models
> #200.10,-0.22377,-0.97236,0.066706,399.72,-0.9716,0.22795,0.063501,210.64,-0.076952,-0.050602,-0.99575,537.52,#200.11,-0.45287,-0.58299,0.67457,206.28,-0.70156,0.69992,0.13391,67.727,-0.5502,-0.41261,-0.72597,606.48,#200.12,-0.45287,-0.58299,0.67457,206.28,-0.70156,0.69992,0.13391,67.727,-0.5502,-0.41261,-0.72597,606.48,#200.13,-0.45287,-0.58299,0.67457,206.28,-0.70156,0.69992,0.13391,67.727,-0.5502,-0.41261,-0.72597,606.48
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.8968, correlation about mean = 0.6136, overlap = 29.48
steps = 64, shift = 0.576, angle = 23.8 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.29328514 -0.84932770 0.43889209 293.48428907
-0.95551461 0.27541298 -0.10554385 238.14563812
-0.03123526 -0.45032225 -0.89231957 583.57162560
Axis -0.58181227 0.79333815 -0.17919001
Axis point 288.32795802 0.00000000 295.44950076
Rotation angle (degrees) 162.76467551
Shift along axis -86.39294489
> view matrix models
> #200.10,-0.26958,-0.86173,0.42982,297.29,-0.96283,0.24909,-0.10447,245.95,-0.017039,-0.442,-0.89685,580.93,#200.11,-0.45287,-0.58299,0.67457,206.94,-0.70156,0.69992,0.13391,67.783,-0.5502,-0.41261,-0.72597,606.4,#200.12,-0.45287,-0.58299,0.67457,206.94,-0.70156,0.69992,0.13391,67.783,-0.5502,-0.41261,-0.72597,606.4,#200.13,-0.45287,-0.58299,0.67457,206.94,-0.70156,0.69992,0.13391,67.783,-0.5502,-0.41261,-0.72597,606.4
> ui mousemode right "rotate selected models"
> view matrix models
> #200.10,-0.25849,-0.73464,0.62728,223.34,-0.96095,0.26196,-0.089185,239.5,-0.098807,-0.62584,-0.77367,597.85,#200.11,-0.31215,-0.4703,0.82546,129.47,-0.68845,0.71072,0.14459,61.327,-0.65467,-0.52315,-0.54563,597.95,#200.12,-0.31215,-0.4703,0.82546,129.47,-0.68845,0.71072,0.14459,61.327,-0.65467,-0.52315,-0.54563,597.95,#200.13,-0.31215,-0.4703,0.82546,129.47,-0.68845,0.71072,0.14459,61.327,-0.65467,-0.52315,-0.54563,597.95
> view matrix models
> #200.10,-0.27325,-0.35296,0.89485,86.262,-0.94607,0.26688,-0.18362,259.43,-0.17401,-0.89677,-0.40685,571.75,#200.11,-0.049423,-0.12247,0.99124,-13.535,-0.70933,0.70299,0.051488,88.342,-0.70314,-0.70058,-0.12162,535.33,#200.12,-0.049423,-0.12247,0.99124,-13.535,-0.70933,0.70299,0.051488,88.342,-0.70314,-0.70058,-0.12162,535.33,#200.13,-0.049423,-0.12247,0.99124,-13.535,-0.70933,0.70299,0.051488,88.342,-0.70314,-0.70058,-0.12162,535.33
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.8661, correlation about mean = 0.4024, overlap = 33.07
steps = 268, shift = 1.01, angle = 56.3 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.57751179 0.01521221 0.81624059 -82.74132587
-0.81403681 0.08646587 0.57434111 91.54103115
-0.06183996 -0.99613866 0.06231836 461.82425949
Axis -0.79269798 0.44321022 -0.41856256
Axis point 0.00000000 256.41524988 181.21814525
Rotation angle (degrees) 97.86572518
Shift along axis -87.14154045
> ui mousemode right "translate selected models"
> show #!200.9 models
> hide #!200.7 models
> show #!200.4 models
> show #!200.5 models
> show #!200.6 models
> show #!200.7 models
> show #!200.8 models
> show #!200.1 models
> show #!200.2 models
> view matrix models
> #200.10,0.59692,0.00014085,0.8023,-97.135,-0.8,0.075733,0.5952,99.514,-0.060677,-0.99713,0.04532,437.56,#200.11,-0.049423,-0.12247,0.99124,-33.34,-0.70933,0.70299,0.051488,99.262,-0.70314,-0.70058,-0.12162,507.06,#200.12,-0.049423,-0.12247,0.99124,-33.34,-0.70933,0.70299,0.051488,99.262,-0.70314,-0.70058,-0.12162,507.06,#200.13,-0.049423,-0.12247,0.99124,-33.34,-0.70933,0.70299,0.051488,99.262,-0.70314,-0.70058,-0.12162,507.06
> view matrix models
> #200.10,0.59692,0.00014085,0.8023,-80.929,-0.8,0.075733,0.5952,68.745,-0.060677,-0.99713,0.04532,436.68,#200.11,-0.049423,-0.12247,0.99124,-17.133,-0.70933,0.70299,0.051488,68.492,-0.70314,-0.70058,-0.12162,506.18,#200.12,-0.049423,-0.12247,0.99124,-17.133,-0.70933,0.70299,0.051488,68.492,-0.70314,-0.70058,-0.12162,506.18,#200.13,-0.049423,-0.12247,0.99124,-17.133,-0.70933,0.70299,0.051488,68.492,-0.70314,-0.70058,-0.12162,506.18
> view matrix models
> #200.10,0.59692,0.00014085,0.8023,-109.42,-0.8,0.075733,0.5952,80.486,-0.060677,-0.99713,0.04532,438.89,#200.11,-0.049423,-0.12247,0.99124,-45.625,-0.70933,0.70299,0.051488,80.234,-0.70314,-0.70058,-0.12162,508.39,#200.12,-0.049423,-0.12247,0.99124,-45.625,-0.70933,0.70299,0.051488,80.234,-0.70314,-0.70058,-0.12162,508.39,#200.13,-0.049423,-0.12247,0.99124,-45.625,-0.70933,0.70299,0.051488,80.234,-0.70314,-0.70058,-0.12162,508.39
> view matrix models
> #200.10,0.59692,0.00014085,0.8023,-114.5,-0.8,0.075733,0.5952,81.915,-0.060677,-0.99713,0.04532,440.17,#200.11,-0.049423,-0.12247,0.99124,-50.702,-0.70933,0.70299,0.051488,81.662,-0.70314,-0.70058,-0.12162,509.67,#200.12,-0.049423,-0.12247,0.99124,-50.702,-0.70933,0.70299,0.051488,81.662,-0.70314,-0.70058,-0.12162,509.67,#200.13,-0.049423,-0.12247,0.99124,-50.702,-0.70933,0.70299,0.051488,81.662,-0.70314,-0.70058,-0.12162,509.67
> select subtract #200.10
6 models selected
> select add #200.10
8 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #200.10,-0.2863,-0.025869,0.95779,-29.294,-0.88651,-0.37209,-0.27504,391.65,0.3635,-0.92784,0.083596,360.94,#200.11,-0.65585,0.42656,0.62282,14.642,-0.61983,0.16663,-0.76684,372.34,-0.43089,-0.88898,0.15511,442.16,#200.12,-0.65585,0.42656,0.62282,14.642,-0.61983,0.16663,-0.76684,372.34,-0.43089,-0.88898,0.15511,442.16,#200.13,-0.65585,0.42656,0.62282,14.642,-0.61983,0.16663,-0.76684,372.34,-0.43089,-0.88898,0.15511,442.16
> view matrix models
> #200.10,-0.5087,-0.0058521,0.86092,20.013,-0.84463,-0.19032,-0.50037,405.59,0.16678,-0.9817,0.091874,395.6,#200.11,-0.72421,0.54556,0.42177,49.736,-0.36659,0.21346,-0.90556,362.89,-0.58407,-0.81043,0.045405,474.3,#200.12,-0.72421,0.54556,0.42177,49.736,-0.36659,0.21346,-0.90556,362.89,-0.58407,-0.81043,0.045405,474.3,#200.13,-0.72421,0.54556,0.42177,49.736,-0.36659,0.21346,-0.90556,362.89,-0.58407,-0.81043,0.045405,474.3
> view matrix models
> #200.10,-0.51715,-0.089899,0.85116,40.013,-0.81307,-0.25903,-0.52136,419.95,0.26735,-0.96168,0.060862,386.14,#200.11,-0.7787,0.48457,0.39852,74.744,-0.38238,0.13704,-0.91379,381.96,-0.4974,-0.86395,0.078576,465.2,#200.12,-0.7787,0.48457,0.39852,74.744,-0.38238,0.13704,-0.91379,381.96,-0.4974,-0.86395,0.078576,465.2,#200.13,-0.7787,0.48457,0.39852,74.744,-0.38238,0.13704,-0.91379,381.96,-0.4974,-0.86395,0.078576,465.2
> ui mousemode right "translate selected models"
> view matrix models
> #200.10,-0.51715,-0.089899,0.85116,47.619,-0.81307,-0.25903,-0.52136,430.08,0.26735,-0.96168,0.060862,391.3,#200.11,-0.7787,0.48457,0.39852,82.35,-0.38238,0.13704,-0.91379,392.09,-0.4974,-0.86395,0.078576,470.36,#200.12,-0.7787,0.48457,0.39852,82.35,-0.38238,0.13704,-0.91379,392.09,-0.4974,-0.86395,0.078576,470.36,#200.13,-0.7787,0.48457,0.39852,82.35,-0.38238,0.13704,-0.91379,392.09,-0.4974,-0.86395,0.078576,470.36
> view matrix models
> #200.10,-0.51715,-0.089899,0.85116,47.259,-0.81307,-0.25903,-0.52136,430.81,0.26735,-0.96168,0.060862,384.15,#200.11,-0.7787,0.48457,0.39852,81.991,-0.38238,0.13704,-0.91379,392.82,-0.4974,-0.86395,0.078576,463.21,#200.12,-0.7787,0.48457,0.39852,81.991,-0.38238,0.13704,-0.91379,392.82,-0.4974,-0.86395,0.078576,463.21,#200.13,-0.7787,0.48457,0.39852,81.991,-0.38238,0.13704,-0.91379,392.82,-0.4974,-0.86395,0.078576,463.21
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9202, correlation about mean = 0.5469, overlap = 35.77
steps = 60, shift = 2.41, angle = 43.6 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.46269606 -0.08752722 0.88218554 32.44846970
-0.79714382 0.47650560 -0.37081552 247.99728120
-0.38790989 -0.87480363 -0.29024905 539.49291136
Axis -0.32732697 0.82489346 -0.46087725
Axis point 211.92048946 0.00000000 334.88225663
Rotation angle (degrees) 129.65919919
Shift along axis -54.68993226
> ui mousemode right "rotate selected models"
> view matrix models
> #200.10,-0.40934,-0.028071,0.91195,7.7465,-0.767,0.55191,-0.32728,219.64,-0.49413,-0.83343,-0.24745,535.48,#200.11,-0.72788,0.56365,0.39049,61.72,-0.32355,0.21978,-0.92033,370.39,-0.60457,-0.79624,0.022395,478.22,#200.12,-0.72788,0.56365,0.39049,61.72,-0.32355,0.21978,-0.92033,370.39,-0.60457,-0.79624,0.022395,478.22,#200.13,-0.72788,0.56365,0.39049,61.72,-0.32355,0.21978,-0.92033,370.39,-0.60457,-0.79624,0.022395,478.22
> view matrix models
> #200.10,-0.68345,0.21035,0.69903,49.821,-0.48225,0.58878,-0.64867,252.12,-0.54802,-0.78044,-0.30097,545.41,#200.11,-0.7901,0.61254,-0.023095,161.65,0.06099,0.041068,-0.99729,371.97,-0.60993,-0.78937,-0.069807,500.15,#200.12,-0.7901,0.61254,-0.023095,161.65,0.06099,0.041068,-0.99729,371.97,-0.60993,-0.78937,-0.069807,500.15,#200.13,-0.7901,0.61254,-0.023095,161.65,0.06099,0.041068,-0.99729,371.97,-0.60993,-0.78937,-0.069807,500.15
> view matrix models
> #200.10,-0.8193,-0.059709,0.57025,151.74,-0.37822,0.80377,-0.45924,150.45,-0.43093,-0.59194,-0.68111,585.35,#200.11,-0.94566,0.32333,-0.034537,241.67,0.14586,0.32687,-0.93374,289.4,-0.29062,-0.88804,-0.35627,546.32,#200.12,-0.94566,0.32333,-0.034537,241.67,0.14586,0.32687,-0.93374,289.4,-0.29062,-0.88804,-0.35627,546.32,#200.13,-0.94566,0.32333,-0.034537,241.67,0.14586,0.32687,-0.93374,289.4,-0.29062,-0.88804,-0.35627,546.32
> view matrix models
> #200.10,-0.87525,-0.12874,0.46621,197.9,-0.40802,0.71413,-0.5688,198.45,-0.25971,-0.68807,-0.67757,580.18,#200.11,-0.97432,0.20408,-0.09517,283.56,0.13443,0.18808,-0.97291,327.52,-0.18065,-0.96072,-0.21069,510.03,#200.12,-0.97432,0.20408,-0.09517,283.56,0.13443,0.18808,-0.97291,327.52,-0.18065,-0.96072,-0.21069,510.03,#200.13,-0.97432,0.20408,-0.09517,283.56,0.13443,0.18808,-0.97291,327.52,-0.18065,-0.96072,-0.21069,510.03
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9206, correlation about mean = 0.5497, overlap = 35.75
steps = 68, shift = 0.693, angle = 35.9 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.48084631 -0.09024619 0.87214818 37.85891189
-0.77979017 0.49880611 -0.37831172 243.12622561
-0.40089164 -0.86200237 -0.31022217 543.60642992
Axis -0.31687235 0.83398575 -0.45172967
Axis point 209.34378917 0.00000000 331.95085763
Rotation angle (degrees) 130.25054143
Shift along axis -54.79578628
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9209, correlation about mean = 0.5512, overlap = 35.76
steps = 44, shift = 0.00627, angle = 0.108 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.48161756 -0.09039851 0.87170674 38.09492448
-0.78011635 0.49744695 -0.37942722 243.70438045
-0.39932820 -0.86277149 -0.31010054 543.51816596
Axis -0.31699905 0.83360225 -0.45234819
Axis point 209.39663981 0.00000000 332.12656975
Rotation angle (degrees) 130.32598289
Shift along axis -54.78299048
> view matrix models
> #200.10,-0.80487,-0.22871,0.54761,187.64,-0.5537,0.62143,-0.55429,233.01,-0.21353,-0.74934,-0.62681,573.67,#200.11,-0.87513,-0.078223,-0.47752,417.99,0.44443,0.26033,-0.85715,243.83,0.19136,-0.96234,-0.19306,455.98,#200.12,-0.87513,-0.078223,-0.47752,417.99,0.44443,0.26033,-0.85715,243.83,0.19136,-0.96234,-0.19306,455.98,#200.13,-0.87513,-0.078223,-0.47752,417.99,0.44443,0.26033,-0.85715,243.83,0.19136,-0.96234,-0.19306,455.98
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9196, correlation about mean = 0.5463, overlap = 35.72
steps = 56, shift = 1.24, angle = 28.3 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.48466829 -0.09151774 0.86989721 39.18228689
-0.77379929 0.50856194 -0.37762339 240.25189339
-0.40783737 -0.85614793 -0.31730021 545.12159258
Axis -0.31368715 0.83759326 -0.44725598
Axis point 208.52177889 0.00000000 330.63021516
Rotation angle (degrees) 130.29350174
Shift along axis -54.86650432
> ui mousemode right "translate selected models"
> view matrix models
> #200.10,-0.47032,-0.11533,0.87493,41.06,-0.79015,0.49656,-0.35929,241.79,-0.39302,-0.8603,-0.32468,546.95,#200.11,-0.87513,-0.078223,-0.47752,417.17,0.44443,0.26033,-0.85715,244.4,0.19136,-0.96234,-0.19306,457.04,#200.12,-0.87513,-0.078223,-0.47752,417.17,0.44443,0.26033,-0.85715,244.4,0.19136,-0.96234,-0.19306,457.04,#200.13,-0.87513,-0.078223,-0.47752,417.17,0.44443,0.26033,-0.85715,244.4,0.19136,-0.96234,-0.19306,457.04
> ui mousemode right "rotate selected models"
> view matrix models
> #200.10,-0.7834,-0.23606,0.57495,179.16,-0.621,0.33537,-0.70844,335.2,-0.025592,-0.91203,-0.40932,528.41,#200.11,-0.59324,-0.30553,-0.7448,488.78,0.76141,0.087458,-0.64235,183.08,0.26139,-0.94816,0.18075,353.66,#200.12,-0.59324,-0.30553,-0.7448,488.78,0.76141,0.087458,-0.64235,183.08,0.26139,-0.94816,0.18075,353.66,#200.13,-0.59324,-0.30553,-0.7448,488.78,0.76141,0.087458,-0.64235,183.08,0.26139,-0.94816,0.18075,353.66
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9204, correlation about mean = 0.5475, overlap = 35.75
steps = 72, shift = 2.26, angle = 29.8 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.47547683 -0.08938216 0.87517577 36.22758975
-0.78420908 0.49389320 -0.37561369 244.03703403
-0.39867019 -0.86491639 -0.30492907 542.59407003
Axis -0.31953382 0.83187128 -0.45374918
Axis point 209.97782445 0.00000000 332.60831648
Rotation angle (degrees) 130.03506794
Shift along axis -54.77015359
> view matrix models
> #200.10,-0.84915,-0.22821,0.4763,211.05,-0.52699,0.30623,-0.79278,348.16,0.035064,-0.9242,-0.3803,514.59,#200.11,-0.093813,-0.57658,-0.81164,491.44,0.9875,0.049826,-0.14954,40.249,0.12666,-0.81552,0.5647,252.17,#200.12,-0.093813,-0.57658,-0.81164,491.44,0.9875,0.049826,-0.14954,40.249,0.12666,-0.81552,0.5647,252.17,#200.13,-0.093813,-0.57658,-0.81164,491.44,0.9875,0.049826,-0.14954,40.249,0.12666,-0.81552,0.5647,252.17
> view matrix models
> #200.10,-0.60689,-0.44913,0.65572,177.76,-0.734,0.00026105,-0.67915,407.29,0.30486,-0.89347,-0.32982,460.27,#200.11,-0.40231,-0.67092,-0.62291,504.61,0.91505,-0.31616,-0.25045,145.45,-0.028909,-0.67075,0.74112,201.61,#200.12,-0.40231,-0.67092,-0.62291,504.61,0.91505,-0.31616,-0.25045,145.45,-0.028909,-0.67075,0.74112,201.61,#200.13,-0.40231,-0.67092,-0.62291,504.61,0.91505,-0.31616,-0.25045,145.45,-0.028909,-0.67075,0.74112,201.61
> view matrix models
> #200.10,-0.81419,-0.18299,0.55101,179.38,-0.57584,0.37579,-0.72607,324.85,-0.074203,-0.90846,-0.41134,533.57,#200.11,-0.16514,-0.52095,-0.83746,496.28,0.96478,0.090963,-0.24683,58.798,0.20477,-0.84873,0.48758,266.95,#200.12,-0.16514,-0.52095,-0.83746,496.28,0.96478,0.090963,-0.24683,58.798,0.20477,-0.84873,0.48758,266.95,#200.13,-0.16514,-0.52095,-0.83746,496.28,0.96478,0.090963,-0.24683,58.798,0.20477,-0.84873,0.48758,266.95
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9203, correlation about mean = 0.5464, overlap = 35.74
steps = 72, shift = 0.913, angle = 30.2 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.47648069 -0.08904441 0.87466408 36.42098470
-0.78237899 0.49677165 -0.37563419 243.23916329
-0.40106019 -0.86330124 -0.30636858 542.95371628
Axis -0.31838969 0.83289913 -0.45266660
Axis point 209.68742932 0.00000000 332.26429856
Rotation angle (degrees) 130.01879046
Shift along axis -54.77939239
> ui mousemode right "translate selected models"
> view matrix models
> #200.10,-0.46183,-0.11266,0.87978,37.338,-0.79845,0.48476,-0.35706,244.13,-0.38626,-0.86736,-0.31383,543.45,#200.11,-0.16514,-0.52095,-0.83746,494.6,0.96478,0.090963,-0.24683,58.817,0.20477,-0.84873,0.48758,266.66,#200.12,-0.16514,-0.52095,-0.83746,494.6,0.96478,0.090963,-0.24683,58.817,0.20477,-0.84873,0.48758,266.66,#200.13,-0.16514,-0.52095,-0.83746,494.6,0.96478,0.090963,-0.24683,58.817,0.20477,-0.84873,0.48758,266.66
> ui mousemode right "rotate selected models"
> view matrix models
> #200.10,-0.74435,0.11664,0.65752,84.858,-0.49162,0.57065,-0.65778,259.65,-0.45194,-0.81287,-0.36742,554.74,#200.11,0.24721,-0.41877,-0.8738,428.98,0.92068,0.38263,0.077098,-70.768,0.30206,-0.82354,0.48014,250.71,#200.12,0.24721,-0.41877,-0.8738,428.98,0.92068,0.38263,0.077098,-70.768,0.30206,-0.82354,0.48014,250.71,#200.13,0.24721,-0.41877,-0.8738,428.98,0.92068,0.38263,0.077098,-70.768,0.30206,-0.82354,0.48014,250.71
> view matrix models
> #200.10,-0.71601,0.071385,0.69443,80.839,-0.55627,0.54267,-0.62934,266.77,-0.42177,-0.83691,-0.34885,550.85,#200.11,0.19087,-0.45097,-0.87189,442.23,0.94627,0.32072,0.041271,-53.45,0.26103,-0.83293,0.48796,256.07,#200.12,0.19087,-0.45097,-0.87189,442.23,0.94627,0.32072,0.041271,-53.45,0.26103,-0.83293,0.48796,256.07,#200.13,0.19087,-0.45097,-0.87189,442.23,0.94627,0.32072,0.041271,-53.45,0.26103,-0.83293,0.48796,256.07
> view matrix models
> #200.10,-0.7001,0.097358,0.70738,70.541,-0.5297,0.59352,-0.60593,247.69,-0.47884,-0.79891,-0.36395,554.8,#200.11,0.17942,-0.42419,-0.88762,442.38,0.92845,0.37131,0.010227,-53.351,0.32524,-0.82595,0.46047,252.89,#200.12,0.17942,-0.42419,-0.88762,442.38,0.92845,0.37131,0.010227,-53.351,0.32524,-0.82595,0.46047,252.89,#200.13,0.17942,-0.42419,-0.88762,442.38,0.92845,0.37131,0.010227,-53.351,0.32524,-0.82595,0.46047,252.89
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9207, correlation about mean = 0.5501, overlap = 35.76
steps = 84, shift = 1.96, angle = 22 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.47849718 -0.08974106 0.87349127 37.11624681
-0.78260242 0.49471014 -0.37788270 244.19901811
-0.39821339 -0.86441219 -0.30694898 542.91915126
Axis -0.31846279 0.83240712 -0.45351940
Axis point 209.74439696 0.00000000 332.49667161
Rotation angle (degrees) 130.19327300
Shift along axis -54.77151021
> view matrix models
> #200.10,-0.83184,-0.023426,0.55452,150.19,-0.51154,0.42,-0.74962,313.55,-0.21534,-0.90722,-0.36136,540.07,#200.11,0.6321,-0.33919,-0.6967,319.43,0.7553,0.47058,0.45616,-157.62,0.17313,-0.81456,0.55364,248.29,#200.12,0.6321,-0.33919,-0.6967,319.43,0.7553,0.47058,0.45616,-157.62,0.17313,-0.81456,0.55364,248.29,#200.13,0.6321,-0.33919,-0.6967,319.43,0.7553,0.47058,0.45616,-157.62,0.17313,-0.81456,0.55364,248.29
> ui mousemode right "translate selected models"
> view matrix models
> #200.10,-0.83184,-0.023426,0.55452,149.05,-0.51154,0.42,-0.74962,313.95,-0.21534,-0.90722,-0.36136,541.51,#200.11,0.6321,-0.33919,-0.6967,318.29,0.7553,0.47058,0.45616,-157.22,0.17313,-0.81456,0.55364,249.73,#200.12,0.6321,-0.33919,-0.6967,318.29,0.7553,0.47058,0.45616,-157.22,0.17313,-0.81456,0.55364,249.73,#200.13,0.6321,-0.33919,-0.6967,318.29,0.7553,0.47058,0.45616,-157.22,0.17313,-0.81456,0.55364,249.73
> view matrix models
> #200.10,-0.83184,-0.023426,0.55452,148.96,-0.51154,0.42,-0.74962,314.04,-0.21534,-0.90722,-0.36136,541.23,#200.11,0.6321,-0.33919,-0.6967,318.2,0.7553,0.47058,0.45616,-157.13,0.17313,-0.81456,0.55364,249.44,#200.12,0.6321,-0.33919,-0.6967,318.2,0.7553,0.47058,0.45616,-157.13,0.17313,-0.81456,0.55364,249.44,#200.13,0.6321,-0.33919,-0.6967,318.2,0.7553,0.47058,0.45616,-157.13,0.17313,-0.81456,0.55364,249.44
> view matrix models
> #200.10,-0.83184,-0.023426,0.55452,149.51,-0.51154,0.42,-0.74962,313.55,-0.21534,-0.90722,-0.36136,540.64,#200.11,0.6321,-0.33919,-0.6967,318.75,0.7553,0.47058,0.45616,-157.62,0.17313,-0.81456,0.55364,248.85,#200.12,0.6321,-0.33919,-0.6967,318.75,0.7553,0.47058,0.45616,-157.62,0.17313,-0.81456,0.55364,248.85,#200.13,0.6321,-0.33919,-0.6967,318.75,0.7553,0.47058,0.45616,-157.62,0.17313,-0.81456,0.55364,248.85
> fitmap #200.11 inMap #200.10
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9167, correlation about mean = 0.6668, overlap = 32.32
steps = 76, shift = 4.13, angle = 48.3 degrees
Position of S115_glycan.mrc (#200.11) relative to S115_glycan.mrc (#200.10)
coordinates:
Matrix rotation and translation
-0.68314031 0.67827326 -0.27067455 162.31714837
0.66426241 0.42311771 -0.61621981 171.12690806
-0.30343822 -0.60076353 -0.73960019 579.20102662
Axis 0.39793249 0.84352332 -0.36071893
Axis point 44.12810327 0.00000000 325.25599129
Rotation angle (degrees) 178.88720413
Shift along axis 0.01203065
> fitmap #200.12 inMap #200.10
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9167, correlation about mean = 0.6668, overlap = 32.32
steps = 76, shift = 4.13, angle = 48.3 degrees
Position of S115_glycan.mrc (#200.12) relative to S115_glycan.mrc (#200.10)
coordinates:
Matrix rotation and translation
-0.68314031 0.67827326 -0.27067455 162.31714837
0.66426241 0.42311771 -0.61621981 171.12690806
-0.30343822 -0.60076353 -0.73960019 579.20102662
Axis 0.39793249 0.84352332 -0.36071893
Axis point 44.12810327 0.00000000 325.25599129
Rotation angle (degrees) 178.88720413
Shift along axis 0.01203065
> fitmap #200.13 inMap #200.10
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9167, correlation about mean = 0.6668, overlap = 32.32
steps = 76, shift = 4.13, angle = 48.3 degrees
Position of S115_glycan.mrc (#200.13) relative to S115_glycan.mrc (#200.10)
coordinates:
Matrix rotation and translation
-0.68314031 0.67827326 -0.27067455 162.31714837
0.66426241 0.42311771 -0.61621981 171.12690806
-0.30343822 -0.60076353 -0.73960019 579.20102662
Axis 0.39793249 0.84352332 -0.36071893
Axis point 44.12810327 0.00000000 325.25599129
Rotation angle (degrees) 178.88720413
Shift along axis 0.01203065
> select subtract #200.11
6 models selected
> select subtract #200.12
4 models selected
> select subtract #200.13
2 models selected
> select subtract #200.10
Nothing selected
> select add #200.11
2 models selected
> select add #200.12
4 models selected
> select add #200.13
6 models selected
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,335.93,0.85591,0.28109,0.43406,-120.67,-0.34587,-0.31283,0.8846,192.02,#200.12,0.38444,-0.90726,-0.17053,335.93,0.85591,0.28109,0.43406,-120.67,-0.34587,-0.31283,0.8846,192.02,#200.13,0.38444,-0.90726,-0.17053,335.93,0.85591,0.28109,0.43406,-120.67,-0.34587,-0.31283,0.8846,192.02
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,334.57,0.85591,0.28109,0.43406,-142.41,-0.34587,-0.31283,0.8846,194.27,#200.12,0.38444,-0.90726,-0.17053,334.57,0.85591,0.28109,0.43406,-142.41,-0.34587,-0.31283,0.8846,194.27,#200.13,0.38444,-0.90726,-0.17053,334.57,0.85591,0.28109,0.43406,-142.41,-0.34587,-0.31283,0.8846,194.27
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,335.13,0.85591,0.28109,0.43406,-131.29,-0.34587,-0.31283,0.8846,193.24,#200.12,0.38444,-0.90726,-0.17053,335.13,0.85591,0.28109,0.43406,-131.29,-0.34587,-0.31283,0.8846,193.24,#200.13,0.38444,-0.90726,-0.17053,335.13,0.85591,0.28109,0.43406,-131.29,-0.34587,-0.31283,0.8846,193.24
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,330.64,0.85591,0.28109,0.43406,-129.54,-0.34587,-0.31283,0.8846,193.58,#200.12,0.38444,-0.90726,-0.17053,330.64,0.85591,0.28109,0.43406,-129.54,-0.34587,-0.31283,0.8846,193.58,#200.13,0.38444,-0.90726,-0.17053,330.64,0.85591,0.28109,0.43406,-129.54,-0.34587,-0.31283,0.8846,193.58
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,332.58,0.85591,0.28109,0.43406,-129.63,-0.34587,-0.31283,0.8846,193.72,#200.12,0.38444,-0.90726,-0.17053,332.58,0.85591,0.28109,0.43406,-129.63,-0.34587,-0.31283,0.8846,193.72,#200.13,0.38444,-0.90726,-0.17053,332.58,0.85591,0.28109,0.43406,-129.63,-0.34587,-0.31283,0.8846,193.72
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,332.31,0.85591,0.28109,0.43406,-129.59,-0.34587,-0.31283,0.8846,192.83,#200.12,0.38444,-0.90726,-0.17053,332.31,0.85591,0.28109,0.43406,-129.59,-0.34587,-0.31283,0.8846,192.83,#200.13,0.38444,-0.90726,-0.17053,332.31,0.85591,0.28109,0.43406,-129.59,-0.34587,-0.31283,0.8846,192.83
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,331.47,0.85591,0.28109,0.43406,-130.41,-0.34587,-0.31283,0.8846,192.32,#200.12,0.38444,-0.90726,-0.17053,331.47,0.85591,0.28109,0.43406,-130.41,-0.34587,-0.31283,0.8846,192.32,#200.13,0.38444,-0.90726,-0.17053,331.47,0.85591,0.28109,0.43406,-130.41,-0.34587,-0.31283,0.8846,192.32
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,331.83,0.85591,0.28109,0.43406,-130.34,-0.34587,-0.31283,0.8846,193.73,#200.12,0.38444,-0.90726,-0.17053,331.83,0.85591,0.28109,0.43406,-130.34,-0.34587,-0.31283,0.8846,193.73,#200.13,0.38444,-0.90726,-0.17053,331.83,0.85591,0.28109,0.43406,-130.34,-0.34587,-0.31283,0.8846,193.73
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,331.52,0.85591,0.28109,0.43406,-130.36,-0.34587,-0.31283,0.8846,191.96,#200.12,0.38444,-0.90726,-0.17053,331.52,0.85591,0.28109,0.43406,-130.36,-0.34587,-0.31283,0.8846,191.96,#200.13,0.38444,-0.90726,-0.17053,331.52,0.85591,0.28109,0.43406,-130.36,-0.34587,-0.31283,0.8846,191.96
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,331.44,0.85591,0.28109,0.43406,-130.47,-0.34587,-0.31283,0.8846,193.33,#200.12,0.38444,-0.90726,-0.17053,331.44,0.85591,0.28109,0.43406,-130.47,-0.34587,-0.31283,0.8846,193.33,#200.13,0.38444,-0.90726,-0.17053,331.44,0.85591,0.28109,0.43406,-130.47,-0.34587,-0.31283,0.8846,193.33
> select subtract #200.11
4 models selected
> view matrix models
> #200.12,0.38444,-0.90726,-0.17053,333,0.85591,0.28109,0.43406,-130.51,-0.34587,-0.31283,0.8846,129.52,#200.13,0.38444,-0.90726,-0.17053,333,0.85591,0.28109,0.43406,-130.51,-0.34587,-0.31283,0.8846,129.52
> view matrix models
> #200.12,0.38444,-0.90726,-0.17053,334.8,0.85591,0.28109,0.43406,-130.87,-0.34587,-0.31283,0.8846,89.193,#200.13,0.38444,-0.90726,-0.17053,334.8,0.85591,0.28109,0.43406,-130.87,-0.34587,-0.31283,0.8846,89.193
> view matrix models
> #200.12,0.38444,-0.90726,-0.17053,333.08,0.85591,0.28109,0.43406,-131.51,-0.34587,-0.31283,0.8846,88.918,#200.13,0.38444,-0.90726,-0.17053,333.08,0.85591,0.28109,0.43406,-131.51,-0.34587,-0.31283,0.8846,88.918
> fitmap #200.12 inMap #200.10
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.12) relative to S115_glycan.mrc (#200.10)
coordinates:
Matrix rotation and translation
-0.68314031 0.67827326 -0.27067455 172.23520133
0.66426241 0.42311771 -0.61621981 218.58605187
-0.30343822 -0.60076353 -0.73960019 598.64752743
Axis 0.39793249 0.84352332 -0.36071893
Axis point 38.08139044 0.00000000 345.15438599
Rotation angle (degrees) 178.88720413
Shift along axis 36.97691961
> fitmap #200.12 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9667, correlation about mean = 0.6849, overlap = 39.26
steps = 64, shift = 2.26, angle = 32 degrees
Position of S115_glycan.mrc (#200.12) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.33562595 -0.93497003 0.11483158 275.43120154
0.94186958 0.33507031 -0.02468988 -44.68914391
-0.01539236 0.11644294 0.99307811 -65.00217146
Axis 0.07480651 0.06902433 0.99480633
Axis point 169.56365491 177.87123790 0.00000000
Rotation angle (degrees) 70.61664027
Shift along axis -47.14516359
> select subtract #200.12
2 models selected
> view matrix models
> #200.13,0.38444,-0.90726,-0.17053,340.69,0.85591,0.28109,0.43406,-126.7,-0.34587,-0.31283,0.8846,36.698
> view matrix models
> #200.13,0.38444,-0.90726,-0.17053,343.41,0.85591,0.28109,0.43406,-132.73,-0.34587,-0.31283,0.8846,36.942
> view matrix models
> #200.13,0.38444,-0.90726,-0.17053,338.84,0.85591,0.28109,0.43406,-130.63,-0.34587,-0.31283,0.8846,37.086
> view matrix models
> #200.13,0.38444,-0.90726,-0.17053,333.74,0.85591,0.28109,0.43406,-130.75,-0.34587,-0.31283,0.8846,35.648
> view matrix models
> #200.13,0.38444,-0.90726,-0.17053,335.95,0.85591,0.28109,0.43406,-133.57,-0.34587,-0.31283,0.8846,36.912
> view matrix models
> #200.13,0.38444,-0.90726,-0.17053,335.42,0.85591,0.28109,0.43406,-133.54,-0.34587,-0.31283,0.8846,36.434
> view matrix models
> #200.13,0.38444,-0.90726,-0.17053,331.58,0.85591,0.28109,0.43406,-137.73,-0.34587,-0.31283,0.8846,89.081
> view matrix models
> #200.13,0.38444,-0.90726,-0.17053,331.67,0.85591,0.28109,0.43406,-135.09,-0.34587,-0.31283,0.8846,90.083
> fitmap #200.13 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9667, correlation about mean = 0.6853, overlap = 39.27
steps = 72, shift = 2.25, angle = 32 degrees
Position of S115_glycan.mrc (#200.13) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.33712156 -0.93471914 0.11246868 275.74061723
0.94137238 0.33631608 -0.02663729 -44.40453103
-0.01292664 0.11485492 0.99329818 -65.09043648
Axis 0.07503855 0.06650177 0.99496067
Axis point 169.66127948 178.45408176 0.00000000
Rotation angle (degrees) 70.52667850
Shift along axis -47.02422860
> view matrix models
> #200.13,0.31318,-0.94131,0.12595,283.41,0.94929,0.31413,-0.01277,-39.228,-0.027544,0.12356,0.99195,-115.14
> view matrix models
> #200.13,0.31318,-0.94131,0.12595,285.17,0.94929,0.31413,-0.01277,-43.152,-0.027544,0.12356,0.99195,-116.06
> view matrix models
> #200.13,0.31318,-0.94131,0.12595,281.18,0.94929,0.31413,-0.01277,-40.306,-0.027544,0.12356,0.99195,-114.89
> view matrix models
> #200.13,0.31318,-0.94131,0.12595,282.15,0.94929,0.31413,-0.01277,-44.213,-0.027544,0.12356,0.99195,-116.09
> view matrix models
> #200.13,0.31318,-0.94131,0.12595,281.3,0.94929,0.31413,-0.01277,-43.975,-0.027544,0.12356,0.99195,-116.59
> select subtract #200.13
Nothing selected
> select add #200.10
2 models selected
> view matrix models
> #200.10,-0.83184,-0.023426,0.55452,148.79,-0.51154,0.42,-0.74962,310.08,-0.21534,-0.90722,-0.36136,491.89
> fitmap #200.10 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.94, correlation about mean = 0.5403, overlap = 37.74
steps = 92, shift = 4.41, angle = 25.2 degrees
Position of S115_glycan.mrc (#200.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.84288312 -0.15057088 0.51660088 186.07718623
-0.43816758 0.74932419 -0.49651028 176.33083023
-0.31234154 -0.64485789 -0.69756798 532.44980974
Axis -0.16670750 0.93153452 -0.32319042
Axis point 174.31712235 0.00000000 274.18580356
Rotation angle (degrees) 153.58089568
Shift along axis -38.84488571
> view matrix models
> #200.10,-0.83559,-0.17768,0.51983,190.78,-0.46252,0.73811,-0.49118,184.66,-0.29642,-0.65086,-0.69893,584.84
> view matrix models
> #200.10,-0.83559,-0.17768,0.51983,188.67,-0.46252,0.73811,-0.49118,181.28,-0.29642,-0.65086,-0.69893,583.88
> view matrix models
> #200.10,-0.83559,-0.17768,0.51983,187.71,-0.46252,0.73811,-0.49118,181.75,-0.29642,-0.65086,-0.69893,584.49
> view matrix models
> #200.10,-0.83559,-0.17768,0.51983,188.23,-0.46252,0.73811,-0.49118,181.57,-0.29642,-0.65086,-0.69893,585.13
> view matrix models
> #200.10,-0.83559,-0.17768,0.51983,188.34,-0.46252,0.73811,-0.49118,181.13,-0.29642,-0.65086,-0.69893,585.02
> view matrix models
> #200.10,-0.83559,-0.17768,0.51983,187.61,-0.46252,0.73811,-0.49118,181.3,-0.29642,-0.65086,-0.69893,584.72
> view matrix models
> #200.10,-0.83559,-0.17768,0.51983,187.88,-0.46252,0.73811,-0.49118,181.21,-0.29642,-0.65086,-0.69893,584.84
> select subtract #200.10
Nothing selected
> select add #200.11
2 models selected
> view matrix models
> #200.11,0.38444,-0.90726,-0.17053,330.71,0.85591,0.28109,0.43406,-134.28,-0.34587,-0.31283,0.8846,143.04
> fitmap #200.11 inMap #200.10
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.916, correlation about mean = 0.6643, overlap = 32.34
steps = 68, shift = 1.3, angle = 25.3 degrees
Position of S115_glycan.mrc (#200.11) relative to S115_glycan.mrc (#200.10)
coordinates:
Matrix rotation and translation
-0.68310165 0.67904381 -0.26883387 161.72587012
0.66325136 0.42271234 -0.61758554 171.66739180
-0.30572824 -0.60017814 -0.73913223 579.29043936
Axis 0.39793005 0.84339882 -0.36101260
Axis point 44.12137544 0.00000000 325.33725908
Rotation angle (degrees) 178.74670175
Shift along axis 0.00851084
> view matrix models
> #200.11,0.29402,-0.9545,-0.049863,322.99,0.95567,0.29273,0.031546,-52.75,-0.015514,-0.056927,0.99826,71.461
> view matrix models
> #200.11,0.29402,-0.9545,-0.049863,321.84,0.95567,0.29273,0.031546,-52.549,-0.015514,-0.056927,0.99826,73.249
> view matrix models
> #200.11,0.29402,-0.9545,-0.049863,322.07,0.95567,0.29273,0.031546,-51.366,-0.015514,-0.056927,0.99826,72.245
> view matrix models
> #200.11,0.29402,-0.9545,-0.049863,322.36,0.95567,0.29273,0.031546,-51.333,-0.015514,-0.056927,0.99826,71.884
> view matrix models
> #200.11,0.29402,-0.9545,-0.049863,322.38,0.95567,0.29273,0.031546,-51.172,-0.015514,-0.056927,0.99826,71.986
> select subtract #200.11
Nothing selected
> select add #200.12
2 models selected
> select subtract #200.12
Nothing selected
> select add #200.14
2 models selected
> select add #200.15
4 models selected
> select add #200.16
6 models selected
> select add #200.17
8 models selected
> view matrix models
> #200.14,1,0,0,156.19,0,1,0,-48.066,0,0,1,-0.83881,#200.15,1,0,0,156.19,0,1,0,-48.066,0,0,1,-0.83881,#200.16,1,0,0,156.19,0,1,0,-48.066,0,0,1,-0.83881,#200.17,1,0,0,156.19,0,1,0,-48.066,0,0,1,-0.83881
> view matrix models
> #200.14,1,0,0,166.72,0,1,0,-30.201,0,0,1,-61.949,#200.15,1,0,0,166.72,0,1,0,-30.201,0,0,1,-61.949,#200.16,1,0,0,166.72,0,1,0,-30.201,0,0,1,-61.949,#200.17,1,0,0,166.72,0,1,0,-30.201,0,0,1,-61.949
> view matrix models
> #200.14,1,0,0,133,0,1,0,-83.133,0,0,1,-183.16,#200.15,1,0,0,133,0,1,0,-83.133,0,0,1,-183.16,#200.16,1,0,0,133,0,1,0,-83.133,0,0,1,-183.16,#200.17,1,0,0,133,0,1,0,-83.133,0,0,1,-183.16
> view matrix models
> #200.14,1,0,0,29.491,0,1,0,-64.442,0,0,1,-103.13,#200.15,1,0,0,29.491,0,1,0,-64.442,0,0,1,-103.13,#200.16,1,0,0,29.491,0,1,0,-64.442,0,0,1,-103.13,#200.17,1,0,0,29.491,0,1,0,-64.442,0,0,1,-103.13
> fitmap #200.14 inMap #200.13
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.14) relative to S115_glycan.mrc (#200.13)
coordinates:
Matrix rotation and translation
0.31317900 0.94929461 -0.02754360 -98.66053838
-0.94130522 0.31412840 0.12356291 232.26282121
0.12594983 -0.01277038 0.99195440 -18.10077774
Axis -0.07168970 -0.08071322 -0.99415590
Axis point 112.56576754 184.89507864 0.00000000
Rotation angle (degrees) 71.96301149
Shift along axis 6.32126015
> fitmap #200.14 inMap #200.13
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of S115_glycan.mrc (#200.14) relative to S115_glycan.mrc (#200.13)
coordinates:
Matrix rotation and translation
0.31317900 0.94929461 -0.02754360 -98.66053838
-0.94130522 0.31412840 0.12356291 232.26282121
0.12594983 -0.01277038 0.99195440 -18.10077774
Axis -0.07168970 -0.08071322 -0.99415590
Axis point 112.56576754 184.89507864 0.00000000
Rotation angle (degrees) 71.96301149
Shift along axis 6.32126015
> select subtract #200.17
6 models selected
> select subtract #200.16
4 models selected
> select subtract #200.15
2 models selected
> select subtract #200.14
Nothing selected
> select add #200.14
2 models selected
> select add #200.15
4 models selected
> select add #200.16
6 models selected
> select add #200.17
8 models selected
> view matrix models
> #200.14,1,0,0,33.425,0,1,0,-61.907,0,0,1,-95.768,#200.15,1,0,0,33.425,0,1,0,-61.907,0,0,1,-95.768,#200.16,1,0,0,33.425,0,1,0,-61.907,0,0,1,-95.768,#200.17,1,0,0,33.425,0,1,0,-61.907,0,0,1,-95.768
> view matrix models
> #200.14,1,0,0,37.299,0,1,0,-59.458,0,0,1,-94.034,#200.15,1,0,0,37.299,0,1,0,-59.458,0,0,1,-94.034,#200.16,1,0,0,37.299,0,1,0,-59.458,0,0,1,-94.034,#200.17,1,0,0,37.299,0,1,0,-59.458,0,0,1,-94.034
> view matrix models
> #200.14,1,0,0,33.241,0,1,0,-54.306,0,0,1,-97.809,#200.15,1,0,0,33.241,0,1,0,-54.306,0,0,1,-97.809,#200.16,1,0,0,33.241,0,1,0,-54.306,0,0,1,-97.809,#200.17,1,0,0,33.241,0,1,0,-54.306,0,0,1,-97.809
> view matrix models
> #200.14,1,0,0,35.542,0,1,0,-52.332,0,0,1,-97.759,#200.15,1,0,0,35.542,0,1,0,-52.332,0,0,1,-97.759,#200.16,1,0,0,35.542,0,1,0,-52.332,0,0,1,-97.759,#200.17,1,0,0,35.542,0,1,0,-52.332,0,0,1,-97.759
> fitmap #200.14 inMap #200.13
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9999, correlation about mean = 0.9991, overlap = 45.34
steps = 100, shift = 1.01, angle = 70.7 degrees
Position of S115_glycan.mrc (#200.14) relative to S115_glycan.mrc (#200.13)
coordinates:
Matrix rotation and translation
0.99964461 0.02214660 -0.01483841 -0.65121993
-0.02229951 0.99969908 -0.01021992 5.56182679
0.01460761 0.01054717 0.99983767 -3.98599712
Axis 0.36295251 -0.51463656 -0.77679771
Axis point 248.90994858 33.36043093 -0.00000000
Rotation angle (degrees) 1.63937284
Shift along axis -0.00236788
> select subtract #200.15
6 models selected
> select subtract #200.16
4 models selected
> select subtract #200.17
2 models selected
> view matrix models
> #200.14,0.3359,-0.93276,0.1309,279.14,0.94177,0.33492,-0.030065,-36.284,-0.015799,0.13338,0.99094,-174.59
> view matrix models
> #200.14,0.3359,-0.93276,0.1309,280.27,0.94177,0.33492,-0.030065,-49.97,-0.015799,0.13338,0.99094,-170.16
> view matrix models
> #200.14,0.3359,-0.93276,0.1309,273.09,0.94177,0.33492,-0.030065,-49.327,-0.015799,0.13338,0.99094,-171.86
> view matrix models
> #200.14,0.3359,-0.93276,0.1309,276.22,0.94177,0.33492,-0.030065,-46.752,-0.015799,0.13338,0.99094,-171.5
> view matrix models
> #200.14,0.3359,-0.93276,0.1309,275.04,0.94177,0.33492,-0.030065,-45.073,-0.015799,0.13338,0.99094,-171.37
> view matrix models
> #200.14,0.3359,-0.93276,0.1309,275.21,0.94177,0.33492,-0.030065,-44.847,-0.015799,0.13338,0.99094,-171.71
> select subtract #200.14
Nothing selected
> select add #200.15
2 models selected
> select add #200.16
4 models selected
> select add #200.17
6 models selected
> view matrix models
> #200.15,1,0,0,66.829,0,1,0,-55.232,0,0,1,-75.706,#200.16,1,0,0,66.829,0,1,0,-55.232,0,0,1,-75.706,#200.17,1,0,0,66.829,0,1,0,-55.232,0,0,1,-75.706
> ui mousemode right "rotate selected models"
> view matrix models
> #200.15,0.38007,-0.91527,0.13353,295.25,0.87703,0.40247,0.26239,-121.2,-0.2939,0.017386,0.95568,-28.751,#200.16,0.38007,-0.91527,0.13353,295.25,0.87703,0.40247,0.26239,-121.2,-0.2939,0.017386,0.95568,-28.751,#200.17,0.38007,-0.91527,0.13353,295.25,0.87703,0.40247,0.26239,-121.2,-0.2939,0.017386,0.95568,-28.751
> view matrix models
> #200.15,0.35992,-0.92154,0.14564,296.23,0.89755,0.38462,0.21558,-109.13,-0.25468,0.053129,0.96556,-43.359,#200.16,0.35992,-0.92154,0.14564,296.23,0.89755,0.38462,0.21558,-109.13,-0.25468,0.053129,0.96556,-43.359,#200.17,0.35992,-0.92154,0.14564,296.23,0.89755,0.38462,0.21558,-109.13,-0.25468,0.053129,0.96556,-43.359
> view matrix models
> #200.15,0.30916,-0.93601,0.16826,300.37,0.93189,0.33347,0.14279,-86.146,-0.18976,0.11265,0.97535,-66.013,#200.16,0.30916,-0.93601,0.16826,300.37,0.93189,0.33347,0.14279,-86.146,-0.18976,0.11265,0.97535,-66.013,#200.17,0.30916,-0.93601,0.16826,300.37,0.93189,0.33347,0.14279,-86.146,-0.18976,0.11265,0.97535,-66.013
> view matrix models
> #200.15,0.021115,-0.97864,0.20451,338.6,0.98296,0.057684,0.17454,-47.276,-0.18261,0.19734,0.96318,-80.435,#200.16,0.021115,-0.97864,0.20451,338.6,0.98296,0.057684,0.17454,-47.276,-0.18261,0.19734,0.96318,-80.435,#200.17,0.021115,-0.97864,0.20451,338.6,0.98296,0.057684,0.17454,-47.276,-0.18261,0.19734,0.96318,-80.435
> ui mousemode right "translate selected models"
> view matrix models
> #200.15,0.021115,-0.97864,0.20451,333.55,0.98296,0.057684,0.17454,-33.893,-0.18261,0.19734,0.96318,-23.266,#200.16,0.021115,-0.97864,0.20451,333.55,0.98296,0.057684,0.17454,-33.893,-0.18261,0.19734,0.96318,-23.266,#200.17,0.021115,-0.97864,0.20451,333.55,0.98296,0.057684,0.17454,-33.893,-0.18261,0.19734,0.96318,-23.266
> view matrix models
> #200.15,0.021115,-0.97864,0.20451,327.04,0.98296,0.057684,0.17454,-48.41,-0.18261,0.19734,0.96318,-21.77,#200.16,0.021115,-0.97864,0.20451,327.04,0.98296,0.057684,0.17454,-48.41,-0.18261,0.19734,0.96318,-21.77,#200.17,0.021115,-0.97864,0.20451,327.04,0.98296,0.057684,0.17454,-48.41,-0.18261,0.19734,0.96318,-21.77
> view matrix models
> #200.15,0.021115,-0.97864,0.20451,336.04,0.98296,0.057684,0.17454,-39.677,-0.18261,0.19734,0.96318,28.48,#200.16,0.021115,-0.97864,0.20451,336.04,0.98296,0.057684,0.17454,-39.677,-0.18261,0.19734,0.96318,28.48,#200.17,0.021115,-0.97864,0.20451,336.04,0.98296,0.057684,0.17454,-39.677,-0.18261,0.19734,0.96318,28.48
> view matrix models
> #200.15,0.021115,-0.97864,0.20451,341.66,0.98296,0.057684,0.17454,-48.583,-0.18261,0.19734,0.96318,27.714,#200.16,0.021115,-0.97864,0.20451,341.66,0.98296,0.057684,0.17454,-48.583,-0.18261,0.19734,0.96318,27.714,#200.17,0.021115,-0.97864,0.20451,341.66,0.98296,0.057684,0.17454,-48.583,-0.18261,0.19734,0.96318,27.714
> view matrix models
> #200.15,0.021115,-0.97864,0.20451,334.94,0.98296,0.057684,0.17454,-51.318,-0.18261,0.19734,0.96318,30.534,#200.16,0.021115,-0.97864,0.20451,334.94,0.98296,0.057684,0.17454,-51.318,-0.18261,0.19734,0.96318,30.534,#200.17,0.021115,-0.97864,0.20451,334.94,0.98296,0.057684,0.17454,-51.318,-0.18261,0.19734,0.96318,30.534
> fitmap #200.15 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9237, correlation about mean = 0.6007, overlap = 32.05
steps = 60, shift = 3.04, angle = 22.8 degrees
Position of S115_glycan.mrc (#200.15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.15860878 -0.97787496 -0.13639578 439.23030826
0.97838690 -0.17422649 0.11137413 10.33384629
-0.13267373 -0.11578293 0.98437391 78.17524711
Axis -0.11534271 -0.00188993 0.99332396
Axis point 219.77032920 191.96060987 0.00000000
Rotation angle (degrees) 100.03389176
Shift along axis 26.97180013
> fitmap #200.16 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9237, correlation about mean = 0.6007, overlap = 32.05
steps = 60, shift = 3.04, angle = 22.8 degrees
Position of S115_glycan.mrc (#200.16) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.15860878 -0.97787496 -0.13639578 439.23030826
0.97838690 -0.17422649 0.11137413 10.33384629
-0.13267373 -0.11578293 0.98437391 78.17524711
Axis -0.11534271 -0.00188993 0.99332396
Axis point 219.77032920 191.96060987 0.00000000
Rotation angle (degrees) 100.03389176
Shift along axis 26.97180013
> fitmap #200.17 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9237, correlation about mean = 0.6007, overlap = 32.05
steps = 60, shift = 3.04, angle = 22.8 degrees
Position of S115_glycan.mrc (#200.17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.15860878 -0.97787496 -0.13639578 439.23030826
0.97838690 -0.17422649 0.11137413 10.33384629
-0.13267373 -0.11578293 0.98437391 78.17524711
Axis -0.11534271 -0.00188993 0.99332396
Axis point 219.77032920 191.96060987 0.00000000
Rotation angle (degrees) 100.03389176
Shift along axis 26.97180013
> select subtract #200.15
4 models selected
> view matrix models
> #200.16,-0.18483,-0.97461,-0.1264,441.57,0.97259,-0.19987,0.11888,15.231,-0.14112,-0.10096,0.98483,128.92,#200.17,-0.18483,-0.97461,-0.1264,441.57,0.97259,-0.19987,0.11888,15.231,-0.14112,-0.10096,0.98483,128.92
> view matrix models
> #200.16,-0.18483,-0.97461,-0.1264,439.44,0.97259,-0.19987,0.11888,15.675,-0.14112,-0.10096,0.98483,129.14,#200.17,-0.18483,-0.97461,-0.1264,439.44,0.97259,-0.19987,0.11888,15.675,-0.14112,-0.10096,0.98483,129.14
> view matrix models
> #200.16,-0.18483,-0.97461,-0.1264,440.23,0.97259,-0.19987,0.11888,16.639,-0.14112,-0.10096,0.98483,129.39,#200.17,-0.18483,-0.97461,-0.1264,440.23,0.97259,-0.19987,0.11888,16.639,-0.14112,-0.10096,0.98483,129.39
> view matrix models
> #200.16,-0.18483,-0.97461,-0.1264,440.69,0.97259,-0.19987,0.11888,16.729,-0.14112,-0.10096,0.98483,128.95,#200.17,-0.18483,-0.97461,-0.1264,440.69,0.97259,-0.19987,0.11888,16.729,-0.14112,-0.10096,0.98483,128.95
> view matrix models
> #200.16,-0.18483,-0.97461,-0.1264,440.87,0.97259,-0.19987,0.11888,17.196,-0.14112,-0.10096,0.98483,129.27,#200.17,-0.18483,-0.97461,-0.1264,440.87,0.97259,-0.19987,0.11888,17.196,-0.14112,-0.10096,0.98483,129.27
> view matrix models
> #200.16,-0.18483,-0.97461,-0.1264,440.25,0.97259,-0.19987,0.11888,17.061,-0.14112,-0.10096,0.98483,128.9,#200.17,-0.18483,-0.97461,-0.1264,440.25,0.97259,-0.19987,0.11888,17.061,-0.14112,-0.10096,0.98483,128.9
> select subtract #200.16
2 models selected
> view matrix models
> #200.17,-0.18483,-0.97461,-0.1264,443.32,0.97259,-0.19987,0.11888,15.658,-0.14112,-0.10096,0.98483,24.911
> view matrix models
> #200.17,-0.18483,-0.97461,-0.1264,443.64,0.97259,-0.19987,0.11888,16.542,-0.14112,-0.10096,0.98483,25.368
> view matrix models
> #200.17,-0.18483,-0.97461,-0.1264,443.2,0.97259,-0.19987,0.11888,16.686,-0.14112,-0.10096,0.98483,24.768
> view matrix models
> #200.17,-0.18483,-0.97461,-0.1264,443.06,0.97259,-0.19987,0.11888,16.664,-0.14112,-0.10096,0.98483,24.495
> select subtract #200.17
Nothing selected
> select add #200.18
2 models selected
> view matrix models #200.18,1,0,0,123.3,0,1,0,-18.767,0,0,1,-25.338
> view matrix models #200.18,1,0,0,65.299,0,1,0,-47.996,0,0,1,-29.518
> view matrix models #200.18,1,0,0,64.992,0,1,0,-47.526,0,0,1,-18.366
> view matrix models #200.18,1,0,0,64.861,0,1,0,-50.347,0,0,1,-22.668
> view matrix models #200.18,1,0,0,64.225,0,1,0,-49.122,0,0,1,-17.701
> view matrix models #200.18,1,0,0,63.555,0,1,0,-55.683,0,0,1,-21.952
> fitmap #200.18 inMap #200.17
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9998, correlation about mean = 0.999, overlap = 45.3
steps = 160, shift = 4.14, angle = 100 degrees
Position of S115_glycan.mrc (#200.18) relative to S115_glycan.mrc (#200.17)
coordinates:
Matrix rotation and translation
0.99962849 0.02298561 -0.01464787 -0.85151486
-0.02318446 0.99963933 -0.01355317 6.49215373
0.01433106 0.01388774 0.99980086 -4.57875432
Axis 0.44964223 -0.47484379 -0.75653502
Axis point 279.34199258 41.52834981 0.00000000
Rotation angle (degrees) 1.74860439
Shift along axis -0.00164792
> view matrix models
> #200.18,-0.16398,-0.98026,-0.11046,441.91,0.97856,-0.17579,0.10732,-4.8449,-0.12461,-0.09049,0.98807,-25.053
> view matrix models
> #200.18,-0.16398,-0.98026,-0.11046,433.21,0.97856,-0.17579,0.10732,1.6952,-0.12461,-0.09049,0.98807,-30.622
> view matrix models
> #200.18,-0.16398,-0.98026,-0.11046,443.21,0.97856,-0.17579,0.10732,5.9496,-0.12461,-0.09049,0.98807,-30.67
> view matrix models
> #200.18,-0.16398,-0.98026,-0.11046,440.15,0.97856,-0.17579,0.10732,10.657,-0.12461,-0.09049,0.98807,-31.492
> view matrix models
> #200.18,-0.16398,-0.98026,-0.11046,439.12,0.97856,-0.17579,0.10732,10.467,-0.12461,-0.09049,0.98807,-31.682
> view matrix models
> #200.18,-0.16398,-0.98026,-0.11046,439.12,0.97856,-0.17579,0.10732,13.647,-0.12461,-0.09049,0.98807,-30.579
> view matrix models
> #200.18,-0.16398,-0.98026,-0.11046,439.28,0.97856,-0.17579,0.10732,14.172,-0.12461,-0.09049,0.98807,-32.493
> select subtract #200.18
Nothing selected
> color #100 #ff1721ff models
> show #!100 models
> color #100 #fdd900ff models
> color #100 #febe0eff models
> hide #!100 models
> hide #!200 models
> show #!200 models
> hide #!200 models
> select add #200
37 models selected
> show #!200 models
> select subtract #200
Nothing selected
> color #200 #80e388ff models
> color #200 #ff1721ff models
> color #200.10 #ff1721ff models
> color #200.11 #ff1721ff models
> color #200.12 #ff1721ff models
> select add #200.13
2 models selected
> select add #200.14
4 models selected
> select add #200.15
6 models selected
> select add #200.16
8 models selected
> select subtract #200.16
6 models selected
> select subtract #200.15
4 models selected
> select subtract #200.14
2 models selected
> select subtract #200.13
Nothing selected
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #14, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> vop add #200.1-200.18
> hide #!14 models
> show #!14 models
> hide #!200 models
> hide #!14 models
> show #!14 models
> volume #14 level 0.4986
> volume #14 level 0.204
> color #14 #ff1721ff models
> volume #14 level 0.06244
> volume #14 level 0.055
> select add #14
2 models selected
> hide #14.1 models
> show #14.1 models
> hide #!14 models
> select subtract #14
Nothing selected
> vop add #200.1-200.18
> vop add #200
Opened volume sum as #15, grid size 75,68,238, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> hide #!15 models
> show #!15 models
> close #14
> hide #!15 models
> show #!15 models
> color #15 #ff1721ff models
> show #!200 models
> hide #!200 models
> show #!200.1-18 target m
> select add #15
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.76578,-0.62633,0.14592,375.04,0.62938,-0.77652,-0.030062,194.5,0.13214,0.068819,0.98884,20.311
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.76578,-0.62633,0.14592,451.89,0.62938,-0.77652,-0.030062,317.95,0.13214,0.068819,0.98884,17.835
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.77304,-0.63435,0.0011443,477.46,0.62796,-0.76499,0.14302,288.75,-0.08985,0.11128,0.98972,47.76
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.77304,-0.63435,0.0011443,475.75,0.62796,-0.76499,0.14302,288.01,-0.08985,0.11128,0.98972,53.561
> view matrix models
> #15,-0.77304,-0.63435,0.0011443,477.1,0.62796,-0.76499,0.14302,289.12,-0.08985,0.11128,0.98972,53.54
> view matrix models
> #15,-0.77304,-0.63435,0.0011443,497.91,0.62796,-0.76499,0.14302,291.37,-0.08985,0.11128,0.98972,53.049
> view matrix models
> #15,-0.77304,-0.63435,0.0011443,438.88,0.62796,-0.76499,0.14302,201.48,-0.08985,0.11128,0.98972,68.859
> view matrix models
> #15,-0.77304,-0.63435,0.0011443,475.83,0.62796,-0.76499,0.14302,196.03,-0.08985,0.11128,0.98972,67.118
> view matrix models
> #15,-0.77304,-0.63435,0.0011443,461.16,0.62796,-0.76499,0.14302,175.7,-0.08985,0.11128,0.98972,56.384
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.77586,-0.62674,-0.072378,472.08,0.62448,-0.77922,0.053395,192.88,-0.089863,-0.0037716,0.99595,74.322
> view matrix models
> #15,-0.77556,-0.62794,-0.064705,471.01,0.62484,-0.77821,0.062877,191.15,-0.089838,0.0083342,0.99592,72.33
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.77556,-0.62794,-0.064705,474.47,0.62484,-0.77821,0.062877,196.12,-0.089838,0.0083342,0.99592,75.693
> view matrix models
> #15,-0.77556,-0.62794,-0.064705,463.34,0.62484,-0.77821,0.062877,196.94,-0.089838,0.0083342,0.99592,75.761
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.77608,-0.63019,-0.023842,457.29,0.62811,-0.7758,0.060073,196.44,-0.056354,0.031646,0.99791,66.021
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.77608,-0.63019,-0.023842,460.75,0.62811,-0.7758,0.060073,201.01,-0.056354,0.031646,0.99791,65.846
> view matrix models
> #15,-0.77608,-0.63019,-0.023842,451.09,0.62811,-0.7758,0.060073,200.33,-0.056354,0.031646,0.99791,65.011
> view matrix models
> #15,-0.77608,-0.63019,-0.023842,454.98,0.62811,-0.7758,0.060073,205.41,-0.056354,0.031646,0.99791,65.266
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.77425,-0.63286,0.004753,450.56,0.63199,-0.77274,0.058883,204.45,-0.033592,0.048594,0.99825,58.625
> view matrix models
> #15,-0.74917,-0.66207,-0.019922,455.11,0.66128,-0.74932,0.034972,199.52,-0.038082,0.013026,0.99919,65.076
> ui mousemode right zoom
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.74917,-0.66207,-0.019922,457.01,0.66128,-0.74932,0.034972,196.4,-0.038082,0.013026,0.99919,64.547
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.74899,-0.66243,-0.01427,456.14,0.66137,-0.74875,0.044166,194.83,-0.039941,0.023642,0.99892,63.154
> view matrix models
> #15,-0.61168,-0.79109,0.0049161,451.33,0.79092,-0.6114,0.024976,153.67,-0.016753,0.019166,0.99968,59.9
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.61168,-0.79109,0.0049161,455.43,0.79092,-0.6114,0.024976,160.28,-0.016753,0.019166,0.99968,59.119
> view matrix models
> #15,-0.61168,-0.79109,0.0049161,460.46,0.79092,-0.6114,0.024976,159.44,-0.016753,0.019166,0.99968,60.888
> view matrix models
> #15,-0.61168,-0.79109,0.0049161,459.59,0.79092,-0.6114,0.024976,158.01,-0.016753,0.019166,0.99968,61.738
> view matrix models
> #15,-0.61168,-0.79109,0.0049161,459.62,0.79092,-0.6114,0.024976,156.51,-0.016753,0.019166,0.99968,61.597
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1878 points
correlation = 0.6462, correlation about mean = 0.2484, overlap = 278.4
steps = 68, shift = 2.5, angle = 2.44 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.62438026 -0.78095348 -0.01615380 461.45932268
0.78093750 -0.62454812 0.00873251 160.47769295
-0.01690851 -0.00716270 0.99983138 65.99341982
Axis -0.01017637 0.00048318 0.99994810
Axis point 192.49654025 191.29984707 0.00000000
Rotation angle (degrees) 128.64905635
Shift along axis 61.37155120
> hide #!15 models
> select subtract #15
Nothing selected
> show #!15 models
> vop add #200
Opened volume sum as #14, grid size 75,68,238, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> color #14 #ff1721ff models
> select add #14
2 models selected
> view matrix models #14,1,0,0,-25.458,0,1,0,196.87,0,0,1,59.253
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.32122,0.94447,-0.069215,50.694,-0.94434,-0.32493,-0.051356,580.62,-0.070995,0.048866,0.99628,63.655
> view matrix models
> #14,-0.79219,0.59775,-0.12298,194.9,-0.59406,-0.80147,-0.068853,603.33,-0.13972,0.018514,0.99002,81.116
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.79219,0.59775,-0.12298,256.08,-0.59406,-0.80147,-0.068853,485.8,-0.13972,0.018514,0.99002,80.904
> view matrix models
> #14,-0.79219,0.59775,-0.12298,209.92,-0.59406,-0.80147,-0.068853,483.45,-0.13972,0.018514,0.99002,84.995
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.072708,0.99714,0.020563,1.2917,-0.97647,-0.066973,-0.20501,448.12,-0.20305,-0.034985,0.97854,106.19
> view matrix models
> #14,-0.040115,0.99486,-0.092956,14.295,-0.99716,-0.045789,-0.059734,424.96,-0.063684,0.090296,0.99388,59.881
> view matrix models
> #14,-0.010196,0.99602,-0.088594,8.4178,-0.9981,-0.015527,-0.059698,420.13,-0.060836,0.087817,0.99428,59.75
> view matrix models
> #14,-0.020774,0.99973,0.010148,-6.1446,-0.99978,-0.020784,0.00091665,411.63,0.0011273,-0.010126,0.99995,64.618
> view matrix models
> #14,-0.18477,0.98278,0.0030574,25.144,-0.98277,-0.18478,0.003357,435.39,0.0038642,-0.0023844,0.99999,62.881
> view matrix models
> #14,-0.18482,0.98275,-0.0071359,26.78,-0.98263,-0.18491,-0.015733,438.42,-0.016781,0.0041042,0.99985,65.281
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.18482,0.98275,-0.0071359,37.948,-0.98263,-0.18491,-0.015733,424.46,-0.016781,0.0041042,0.99985,71.605
> view matrix models
> #14,-0.18482,0.98275,-0.0071359,39.058,-0.98263,-0.18491,-0.015733,424.31,-0.016781,0.0041042,0.99985,74.863
> view matrix models
> #14,-0.18482,0.98275,-0.0071359,35.808,-0.98263,-0.18491,-0.015733,419.63,-0.016781,0.0041042,0.99985,72.474
> view matrix models
> #14,-0.18482,0.98275,-0.0071359,36.138,-0.98263,-0.18491,-0.015733,416.73,-0.016781,0.0041042,0.99985,19.293
> view matrix models
> #14,-0.18482,0.98275,-0.0071359,37.106,-0.98263,-0.18491,-0.015733,416.86,-0.016781,0.0041042,0.99985,20.332
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1878 points
correlation = 0.7253, correlation about mean = 0.359, overlap = 330.7
steps = 80, shift = 1.5, angle = 3.08 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.16033831 0.98688927 -0.01847279 36.87800583
-0.98701393 -0.16048737 -0.00688126 411.41533977
-0.00975569 0.01712957 0.99980570 16.86740547
Axis 0.01216312 -0.00441580 -0.99991628
Axis point 193.47999995 189.89209109 0.00000000
Rotation angle (degrees) 99.23649863
Shift along axis -18.23417008
> view matrix models
> #14,-0.13561,0.99075,-0.0053513,29.033,-0.99076,-0.13559,0.0037811,406.67,0.0030205,0.0058146,0.99998,15.723
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1878 points
correlation = 0.7253, correlation about mean = 0.3589, overlap = 330.8
steps = 68, shift = 0.677, angle = 0.00823 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.16031977 0.98689027 -0.01858026 36.89134104
-0.98701586 -0.16047149 -0.00697494 411.42277016
-0.00986511 0.01722079 0.99980306 16.87037551
Axis 0.01225675 -0.00441481 -0.99991514
Axis point 193.49369691 189.88914062 0.00000000
Rotation angle (degrees) 99.23557660
Shift along axis -18.23312857
> select subtract #14
Nothing selected
> select add #15
2 models selected
> select subtract #15
Nothing selected
> show #!200#!200.1-18 target m
> select add #200
37 models selected
> select add #14
39 models selected
> select subtract #14
37 models selected
> select add #14
39 models selected
> select subtract #14
37 models selected
> select add #14
39 models selected
> select subtract #200
2 models selected
> select add #200
39 models selected
> select subtract #14
37 models selected
> select add #14
39 models selected
> select subtract #14
37 models selected
> select add #14
39 models selected
> ui mousemode right "rotate selected models"
> select subtract #14
37 models selected
> select add #14
39 models selected
> select add #15
41 models selected
> select subtract #15
39 models selected
> select subtract #14
37 models selected
> select add #14
39 models selected
> select subtract #14
37 models selected
> ui mousemode right select
> select clear
> select #14
2 models selected
> select clear
> select #14
2 models selected
> select #200.4
2 models selected
> hide #!14 models
> show #!14 models
> hide #!15 models
> select add #200
37 models selected
> select subtract #200
Nothing selected
> hide #!200 models
> hide #!6 models
> hide #!5 models
> show #!200 models
> hide #!200 models
> show #!200 models
> hide #!200 models
> ui tool show "Map Eraser"
> select add #16
1 model selected
> select add #14
3 models selected
> select subtract #14
1 model selected
> volume erase #14 center 138.51,196.77,297.11 radius 10.899
> volume erase #14 center 138.96,198.34,241.52 radius 10.899
> show #!6 models
> hide #!6 models
> volume erase #14 center 161.5,191.66,208.89 radius 10.803
> volume erase #14 center 141.04,196.25,183.81 radius 10.803
> volume erase #14 center 139.75,189.15,189.74 radius 10.803
> volume erase #14 center 136.33,194.16,137.79 radius 10.803
> select subtract #16
Nothing selected
> hide #16 models
> close #16
> show #!200 models
> show #!15 models
> show #!6 models
> show #!5 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #21, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #16 id #200
> rename #21 id #200
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #21 id #200
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #21, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #21 id #200
> rename #16 id #200
> ui mousemode right select
> select #5.16/AF:115
6 atoms, 5 bonds, 1 residue, 1 model selected
> select clear
> select #5.16/AF:115
6 atoms, 5 bonds, 1 residue, 1 model selected
> select add #5.18/AH:115
12 atoms, 10 bonds, 2 residues, 2 models selected
> select add #5.19/AI:115
18 atoms, 15 bonds, 3 residues, 3 models selected
> select add #5.23/AM:115
24 atoms, 20 bonds, 4 residues, 4 models selected
> select add #5.24/AN:115
30 atoms, 25 bonds, 5 residues, 5 models selected
> select add #5.3/2:115
36 atoms, 30 bonds, 6 residues, 6 models selected
> select add #5.26/AP:115
42 atoms, 35 bonds, 7 residues, 7 models selected
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #16 id #200
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #16 id #200
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan.mrc
Opened S115_glycan.mrc as #16, grid size 9,10,12, pixel 1.07,1.07,1.07, shown
at level 1.08, step 1, values float32
> rename #16 id #200
> select clear
> select add #200.19
2 models selected
> select clear
> select add #200.19
2 models selected
> ui mousemode right "translate selected models"
> volume #200.25 level 0.055
> volume #200.24 level 0.055
> volume #200.23 level 0.055
> volume #200.21 level 0.055
> volume #200.22 level 0.055
> volume #200.20 level 0.055
> volume #200.19 level 0.055
> view matrix models #200.19,1,0,0,2.9031,0,1,0,-6.1338,0,0,1,-156.08
> view matrix models #200.19,1,0,0,2.9737,0,1,0,-6.8761,0,0,1,-156.15
> select subtract #200.19
Nothing selected
> select add #200.20
2 models selected
> view matrix models #200.20,1,0,0,110.78,0,1,0,-84.339,0,0,1,-1.0536
> view matrix models #200.20,1,0,0,62.698,0,1,0,-74.95,0,0,1,-122.91
> select subtract #200.20
Nothing selected
> select add #200.21
2 models selected
> view matrix models #200.21,1,0,0,137.71,0,1,0,-17.898,0,0,1,11.401
> view matrix models #200.21,1,0,0,149.34,0,1,0,-14.701,0,0,1,-164.36
> view matrix models #200.21,1,0,0,68.213,0,1,0,-29.894,0,0,1,-176.68
> view matrix models #200.21,1,0,0,81.937,0,1,0,-52.995,0,0,1,-179.03
> view matrix models #200.21,1,0,0,65.995,0,1,0,-53.089,0,0,1,-173.9
> select subtract #200.21
Nothing selected
> select add #200.22
2 models selected
> select subtract #200.22
Nothing selected
> select add #200.21
2 models selected
> view matrix models #200.21,1,0,0,68.407,0,1,0,-55.515,0,0,1,-173.97
> select add #200.20
4 models selected
> select subtract #200.21
2 models selected
> view matrix models #200.20,1,0,0,74.84,0,1,0,-62.59,0,0,1,-123.2
> view matrix models #200.20,1,0,0,66,0,1,0,-55.235,0,0,1,-121.88
> select add #200.22
4 models selected
> select subtract #200.20
2 models selected
> view matrix models #200.22,1,0,0,151.26,0,1,0,-58.323,0,0,1,0.85766
> view matrix models #200.22,1,0,0,164.39,0,1,0,-14.676,0,0,1,-174.8
> view matrix models #200.22,1,0,0,109.04,0,1,0,-14.596,0,0,1,-171.45
> view matrix models #200.22,1,0,0,109.6,0,1,0,-13.79,0,0,1,-168.82
> view matrix models #200.22,1,0,0,107.62,0,1,0,-14.119,0,0,1,-169.16
> select subtract #200.22
Nothing selected
> select add #200.23
2 models selected
> view matrix models #200.23,1,0,0,137.11,0,1,0,64.458,0,0,1,-132.66
> view matrix models #200.23,1,0,0,104.24,0,1,0,41.325,0,0,1,-97.94
> view matrix models #200.23,1,0,0,89.065,0,1,0,47.36,0,0,1,-115.03
> view matrix models #200.23,1,0,0,90.186,0,1,0,45.15,0,0,1,-116.45
> view matrix models #200.23,1,0,0,89.213,0,1,0,44.662,0,0,1,-115.09
> select subtract #200.23
Nothing selected
> select add #200.24
2 models selected
> view matrix models #200.24,1,0,0,125.46,0,1,0,-18.871,0,0,1,-153.99
> view matrix models #200.24,1,0,0,93.374,0,1,0,49.685,0,0,1,-164.82
> view matrix models #200.24,1,0,0,92.607,0,1,0,40.212,0,0,1,-165.51
> view matrix models #200.24,1,0,0,85.213,0,1,0,44.488,0,0,1,-166.7
> select subtract #200.24
Nothing selected
> select add #200.25
2 models selected
> view matrix models #200.25,1,0,0,150.25,0,1,0,-13.331,0,0,1,-160.81
> view matrix models #200.25,1,0,0,130.75,0,1,0,-60.541,0,0,1,-149.98
> view matrix models #200.25,1,0,0,97.514,0,1,0,-61.19,0,0,1,-146.43
> view matrix models #200.25,1,0,0,104.6,0,1,0,-43.005,0,0,1,-146.94
> view matrix models #200.25,1,0,0,92.028,0,1,0,-42.379,0,0,1,-147.53
> select add #200.19
4 models selected
> select subtract #200.25
2 models selected
> select subtract #200.19
Nothing selected
> select add #200.20
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #200.20,0.71975,-0.69404,0.01606,234.35,0.69399,0.71992,0.0095421,-96.668,-0.018185,0.0042778,0.99983,-120.22
> view matrix models
> #200.20,-0.32252,-0.94259,-0.086614,447.77,0.93237,-0.33214,0.14273,42.825,-0.1633,-0.034723,0.98596,-89.758
> ui mousemode right "translate selected models"
> view matrix models
> #200.20,-0.32252,-0.94259,-0.086614,448.47,0.93237,-0.33214,0.14273,42.909,-0.1633,-0.034723,0.98596,-38.325
> ui mousemode right select
> ui mousemode right "translate selected models"
> select subtract #200.20
Nothing selected
> select add #200.22
2 models selected
> select subtract #200.22
Nothing selected
> select add #200.21
2 models selected
> view matrix models #200.21,1,0,0,65.689,0,1,0,-56.269,0,0,1,-70.692
> ui mousemode right select
> select #200.18
2 models selected
> select clear
> fitmap #200.20 inMap #200.18
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 1, correlation about mean = 0.9996, overlap = 45.72
steps = 56, shift = 1.35, angle = 9.91 degrees
Position of S115_glycan.mrc (#200.20) relative to S115_glycan.mrc (#200.18)
coordinates:
Matrix rotation and translation
0.99999798 -0.00047830 -0.00194912 0.55441134
0.00048106 0.99999889 0.00141128 -0.40065779
0.00194844 -0.00141221 0.99999710 0.00422138
Axis -0.57534257 -0.79420707 0.19548926
Axis point -1.73841123 0.00000000 284.45979856
Rotation angle (degrees) 0.14058927
Shift along axis 0.00005403
> fitmap #200.21 inMap #200.18
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.9999, correlation about mean = 0.9994, overlap = 45.48
steps = 156, shift = 1.53, angle = 99 degrees
Position of S115_glycan.mrc (#200.21) relative to S115_glycan.mrc (#200.18)
coordinates:
Matrix rotation and translation
0.99976448 0.01796320 -0.01217814 -0.49672137
-0.01809029 0.99978219 -0.01040781 5.01499573
0.01198853 0.01062566 0.99987168 -3.64924175
Axis 0.43609297 -0.50105451 -0.74750739
Axis point 276.80066610 31.24330475 0.00000000
Rotation angle (degrees) 1.38186796
Shift along axis -0.00156777
> select add #200.21
2 models selected
> select add #200.20
4 models selected
Drag select of 200.18 S115_glycan.mrc , 200.20 S115_glycan.mrc , 200.21
S115_glycan.mrc , 6 J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone , 1430
residues, 29 volume sum
> select clear
> ui mousemode right "translate selected models"
> select add #200.20
2 models selected
> select add #200.21
4 models selected
> view matrix models
> #200.20,-0.16467,-0.98002,-0.11152,440.39,0.97868,-0.17641,0.10516,15.041,-0.12273,-0.091825,0.98818,-84.398,#200.21,-0.14753,-0.98417,-0.098242,435.66,0.9828,-0.15703,0.097214,12.668,-0.1111,-0.082209,0.9904,-88.367
> view matrix models
> #200.20,-0.16467,-0.98002,-0.11152,440.41,0.97868,-0.17641,0.10516,14.986,-0.12273,-0.091825,0.98818,-84.615,#200.21,-0.14753,-0.98417,-0.098242,435.68,0.9828,-0.15703,0.097214,12.613,-0.1111,-0.082209,0.9904,-88.584
> select subtract #200.20
2 models selected
> view matrix models
> #200.21,-0.14753,-0.98417,-0.098242,436.36,0.9828,-0.15703,0.097214,8.0037,-0.1111,-0.082209,0.9904,-140.06
> view matrix models
> #200.21,-0.14753,-0.98417,-0.098242,437.42,0.9828,-0.15703,0.097214,9.8967,-0.1111,-0.082209,0.9904,-141.75
> view matrix models
> #200.21,-0.14753,-0.98417,-0.098242,437.55,0.9828,-0.15703,0.097214,10.895,-0.1111,-0.082209,0.9904,-141.9
> view matrix models
> #200.21,-0.14753,-0.98417,-0.098242,436.91,0.9828,-0.15703,0.097214,10.634,-0.1111,-0.082209,0.9904,-141.32
> select subtract #200.21
Nothing selected
> select add #200.22
3 models selected
> select add #200.23
5 models selected
> select subtract #200.23
3 models selected
> select subtract #200.22
Nothing selected
> select add #200.22
3 models selected
> view matrix models #200.22,1,0,0,111.51,0,1,0,-18.757,0,0,1,-119.27
> view matrix models #200.22,1,0,0,111.11,0,1,0,-17.53,0,0,1,-116.18
> fitmap #200.22 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9509, correlation about mean = 0.5784, overlap = 32.61
steps = 72, shift = 4.27, angle = 70.8 degrees
Position of S115_glycan.mrc (#200.22) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.86162127 0.27344299 0.42759528 -28.28748852
0.27108460 0.46430872 -0.84316698 254.54871454
-0.42909432 0.84240509 0.32593209 -59.94153521
Axis 0.89146582 0.45308623 -0.00124731
Axis point 0.00000000 181.52654954 138.10158822
Rotation angle (degrees) 70.97800893
Shift along axis 90.18995343
> view matrix models
> #200.22,0.84892,0.27258,0.45282,-45.13,0.28772,0.48033,-0.82855,259.28,-0.44335,0.83366,0.32933,-96.184
> view matrix models
> #200.22,0.84892,0.27258,0.45282,-37.882,0.28772,0.48033,-0.82855,263.28,-0.44335,0.83366,0.32933,-95.778
> view matrix models
> #200.22,0.84892,0.27258,0.45282,-43.122,0.28772,0.48033,-0.82855,251.41,-0.44335,0.83366,0.32933,-102.94
> view matrix models
> #200.22,0.84892,0.27258,0.45282,-40.258,0.28772,0.48033,-0.82855,255.53,-0.44335,0.83366,0.32933,-104.27
> view matrix models
> #200.22,0.84892,0.27258,0.45282,-37.327,0.28772,0.48033,-0.82855,257.21,-0.44335,0.83366,0.32933,-105.33
> view matrix models
> #200.22,0.84892,0.27258,0.45282,-36.82,0.28772,0.48033,-0.82855,257.92,-0.44335,0.83366,0.32933,-106.04
> view matrix models
> #200.22,0.84892,0.27258,0.45282,-37.159,0.28772,0.48033,-0.82855,249.43,-0.44335,0.83366,0.32933,-107.8
> view matrix models
> #200.22,0.84892,0.27258,0.45282,-36.908,0.28772,0.48033,-0.82855,250.22,-0.44335,0.83366,0.32933,-107.25
> ui mousemode right "rotate selected models"
> view matrix models
> #200.22,-0.5953,-0.35865,-0.71902,564.56,0.20278,-0.93295,0.29747,262.03,-0.77749,0.031287,0.62811,20.662
> view matrix models
> #200.22,-0.98996,-0.1248,-0.066332,413.76,0.1217,-0.99137,0.048805,344.68,-0.07185,0.040243,0.9966,-165.58
> ui mousemode right "translate selected models"
> view matrix models
> #200.22,-0.98996,-0.1248,-0.066332,416.01,0.1217,-0.99137,0.048805,341.79,-0.07185,0.040243,0.9966,-167.94
> view matrix models
> #200.22,-0.98996,-0.1248,-0.066332,416.68,0.1217,-0.99137,0.048805,345.3,-0.07185,0.040243,0.9966,-167.48
> view matrix models
> #200.22,-0.98996,-0.1248,-0.066332,418.39,0.1217,-0.99137,0.048805,344.05,-0.07185,0.040243,0.9966,-167.41
> view matrix models
> #200.22,-0.98996,-0.1248,-0.066332,418.43,0.1217,-0.99137,0.048805,344.19,-0.07185,0.040243,0.9966,-167.14
> ui mousemode right select
> select clear
> select #15
3 models selected
> select clear
> select #200.25
3 models selected
> select #200.23
2 models selected
> select add #200.23
3 models selected
> select add #200.24
6 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #200.23,1,0,0,95.172,0,1,0,43.41,0,0,1,-64.678,#200.24,1,0,0,91.172,0,1,0,43.236,0,0,1,-116.29
> view matrix models
> #200.23,1,0,0,94.712,0,1,0,43.109,0,0,1,-62.535,#200.24,1,0,0,90.712,0,1,0,42.935,0,0,1,-114.14
> view matrix models
> #200.23,1,0,0,96.522,0,1,0,39.16,0,0,1,-62.546,#200.24,1,0,0,92.522,0,1,0,38.986,0,0,1,-114.15
> view matrix models
> #200.23,1,0,0,94.576,0,1,0,41.127,0,0,1,-61.436,#200.24,1,0,0,90.576,0,1,0,40.953,0,0,1,-113.04
> fitmap #200.23 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9274, correlation about mean = 0.5342, overlap = 26.16
steps = 140, shift = 2.56, angle = 102 degrees
Position of S115_glycan.mrc (#200.23) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.10795494 -0.49285303 0.86338961 129.94114754
0.88291024 0.35165944 0.31113525 -30.26162117
-0.45696305 0.79588412 0.39718162 -6.35689556
Axis 0.24637869 0.67108306 0.69924608
Axis point 87.04329248 64.34370510 0.00000000
Rotation angle (degrees) 100.34395410
Shift along axis 7.26163382
> fitmap #200.24 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9292, correlation about mean = 0.5642, overlap = 28.68
steps = 88, shift = 3.23, angle = 92.1 degrees
Position of S115_glycan.mrc (#200.24) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.12505883 -0.40853858 0.90413302 70.58907460
0.90355445 0.42331305 0.06629805 13.32235902
-0.40981661 0.80864225 0.42207588 -75.78607641
Axis 0.37121263 0.65704655 0.65611814
Axis point -18.02941325 0.00000000 -101.58426716
Rotation angle (degrees) 90.84664018
Shift along axis -14.76765383
> select subtract #200.24
3 models selected
> view matrix models
> #200.23,-0.136,-0.49119,0.86037,149.91,0.8748,0.34807,0.337,-15.814,-0.465,0.79849,0.38235,-99.453
> view matrix models
> #200.23,-0.136,-0.49119,0.86037,125.02,0.8748,0.34807,0.337,-17.103,-0.465,0.79849,0.38235,-110.13
> view matrix models
> #200.23,-0.136,-0.49119,0.86037,133.23,0.8748,0.34807,0.337,-26.462,-0.465,0.79849,0.38235,-108.01
> view matrix models
> #200.23,-0.136,-0.49119,0.86037,133.33,0.8748,0.34807,0.337,-26.573,-0.465,0.79849,0.38235,-107.97
> view matrix models
> #200.23,-0.136,-0.49119,0.86037,128.95,0.8748,0.34807,0.337,-26.36,-0.465,0.79849,0.38235,-106.14
> view matrix models
> #200.23,-0.136,-0.49119,0.86037,129.28,0.8748,0.34807,0.337,-31.772,-0.465,0.79849,0.38235,-104.67
> view matrix models
> #200.23,-0.136,-0.49119,0.86037,126.93,0.8748,0.34807,0.337,-31.419,-0.465,0.79849,0.38235,-107.74
> select subtract #200.23
Nothing selected
> select add #200.22
2 models selected
> select subtract #200.22
Nothing selected
> select add #200.23
2 models selected
> select subtract #200.23
Nothing selected
> select add #200.24
2 models selected
> select subtract #200.24
Nothing selected
> select add #200.25
2 models selected
> fitmap #200.25 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.8465, correlation about mean = 0.2456, overlap = 26.72
steps = 76, shift = 2.78, angle = 65.8 degrees
Position of S115_glycan.mrc (#200.25) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.65418083 -0.42170575 0.62786280 70.77060034
-0.12436773 0.75885852 0.63927021 -132.44869850
-0.74604297 -0.49628419 0.44398411 185.07755754
Axis -0.62839451 0.76029369 0.16454129
Axis point 192.70954227 0.00000000 108.24141912
Rotation angle (degrees) 64.62685196
Shift along axis -114.71886775
> fitmap #200.25 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.8486, correlation about mean = 0.2544, overlap = 26.77
steps = 28, shift = 0.0295, angle = 0.619 degrees
Position of S115_glycan.mrc (#200.25) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.65071626 -0.41680367 0.63469918 68.65466735
-0.13428352 0.75953483 0.63645485 -130.56660162
-0.74735285 -0.49938116 0.43827180 187.24125637
Axis -0.62715967 0.76310954 0.15599544
Axis point 191.87808940 0.00000000 109.56153534
Rotation angle (degrees) 64.89607586
Shift along axis -113.48527495
> view matrix models
> #200.25,0.64416,-0.44218,0.62414,92.258,-0.1263,0.74329,0.65694,-106.85,-0.7544,-0.502,0.42295,168.43
> select add #200.22
4 models selected
> select subtract #200.22
2 models selected
> fitmap #200.25 inMap #200.22
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 0.8723, correlation about mean = 0.6467, overlap = 30.07
steps = 72, shift = 1.85, angle = 22 degrees
Position of S115_glycan.mrc (#200.25) relative to S115_glycan.mrc (#200.22)
coordinates:
Matrix rotation and translation
-0.53307789 0.32914847 -0.77941596 332.90893885
0.36388857 -0.74247019 -0.56242610 424.33791242
-0.76381481 -0.58343748 0.27602108 391.89452441
Axis -0.48308418 -0.35869468 0.79872887
Axis point 282.07786553 302.43159120 0.00000000
Rotation angle (degrees) 178.75388356
Shift along axis -0.01332458
> ui mousemode right "rotate selected models"
> view matrix models
> #200.25,0.24448,-0.80629,0.53863,236.55,-0.91814,-0.013843,0.39602,211.52,-0.31185,-0.59135,-0.74367,410.4
> view matrix models
> #200.25,0.99451,0.021375,-0.10248,130.93,-0.091224,0.65717,-0.7482,248.16,0.051354,0.75344,0.65551,-239.13
> view matrix models
> #200.25,0.96503,0.15016,0.21485,32.828,-0.048319,0.90752,-0.41723,113.44,-0.25763,0.39226,0.88304,-182.81
> view matrix models
> #200.25,-0.97622,0.060972,-0.20803,414.14,-0.12586,-0.94074,0.3149,304.28,-0.1765,0.33359,0.92605,-192.81
> fitmap #200.25 inMap #200.22
Fit map S115_glycan.mrc in map S115_glycan.mrc using 53 points
correlation = 1, correlation about mean = 0.9999, overlap = 45.91
steps = 64, shift = 1.28, angle = 22 degrees
Position of S115_glycan.mrc (#200.25) relative to S115_glycan.mrc (#200.22)
coordinates:
Matrix rotation and translation
0.99999943 -0.00088103 -0.00060539 0.31133312
0.00088151 0.99999931 0.00077748 -0.30583807
0.00060469 -0.00077800 0.99999951 0.06542859
Axis -0.58832000 -0.45768206 0.66663836
Axis point 347.00306979 353.43418033 0.00000000
Rotation angle (degrees) 0.07574287
Shift along axis 0.00043031
> ui mousemode right "translate selected models"
> view matrix models
> #200.25,-0.99011,-0.12387,-0.06583,400.88,0.12086,-0.99151,0.047961,317.29,-0.071212,0.039531,0.99668,-143.42
> fitmap #200.25 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.947, correlation about mean = 0.6686, overlap = 28.02
steps = 68, shift = 2.5, angle = 8.9 degrees
Position of S115_glycan.mrc (#200.25) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.95702436 -0.21281250 -0.19701573 448.41486126
0.22127746 -0.97496862 -0.02173642 316.05463250
-0.18745839 -0.06439741 0.98015934 -104.25217750
Axis -0.09778219 -0.02190613 0.99496672
Axis point 201.73780007 180.91943403 0.00000000
Rotation angle (degrees) 167.40001672
Shift along axis -154.49796850
> fitmap #200.25 inMap #6
Fit map S115_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 53 points
correlation = 0.9471, correlation about mean = 0.6688, overlap = 28.03
steps = 36, shift = 0.0044, angle = 0.126 degrees
Position of S115_glycan.mrc (#200.25) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.95680380 -0.21194456 -0.19901253 448.69784834
0.22053633 -0.97513546 -0.02178429 316.20012849
-0.18944714 -0.06473277 0.97975479 -103.81735381
Axis -0.09879722 -0.02200391 0.99486428
Axis point 201.90233188 180.91201599 0.00000000
Rotation angle (degrees) 167.44617180
Shift along axis -154.57191808
> select subtract #200.25
Nothing selected
> color #200.19 #ff1721ff models
> color #200.20 #ff1721ff models
> color #200.21 #ff1721ff models
> color #200.22 #ff1721ff models
> color #200.23 #ff1721ff models
> color #200.24 #ff1721ff models
> color #200.25 #ff1721ff models
> vop add #200
Opened volume sum as #16, grid size 116,109,261, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> hide #!200 models
> color #16 #ff1721ff models
> vop add #14,15,16
Opened volume sum as #21, grid size 128,151,281, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> color #21 #ff1721ff models
> show #!14 models
> hide #!14 models
> close #14-16
> rename #21 S115_glycan_all
> rename #21 #16
No name or id option specified for renaming
> rename #21 id #16
> hide #!16 models
> show #!17 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #14, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #15, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #14-15 id #201
> rename #17 id #201
> color #201 #ff4bf9ff models
> color #201.1 #ff4bf9ff models
> color #201.2 #ff4bf9ff models
> rename #16 id #30
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #14, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #15, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #14-17 id #201
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #14, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #15, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #14-17 id #201
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #14, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #15, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #14-17 id #201
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #14, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #15, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #14-17 id #201
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #14, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #15, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #14-17 id #201
> color #5,201#6.1#!6 magenta
> color #6 #fff6b6ff models
> color #5 #fff6b6ff models
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> ui mousemode right select
> select clear
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:115 #5.2/1:115 #5.3/2:115 #5.4/3:115 #5.5/4:115 #5.6/5:115
> #5.7/6:115 #5.8/7:115 #5.9/8:115 #5.10/9:115 #5.11/AA:115 #5.12/AB:115
> #5.13/AC:115 #5.14/AD:115 #5.15/AE:115 #5.16/AF:115 #5.17/AG:115
> #5.18/AH:115 #5.19/AI:115 #5.20/AJ:115 #5.21/AK:115 #5.22/AL:115
> #5.23/AM:115 #5.24/AN:115 #5.25/AO:115 #5.26/AP:115 #5.27/B:115 #5.28/C:115
> #5.29/D:115 #5.30/E:115 #5.31/F:115 #5.32/G:115 #5.33/H:115 #5.34/I:115
> #5.35/J:115 #5.36/K:115 #5.37/L:115 #5.38/M:115 #5.39/N:115 #5.40/O:115
> #5.41/P:115 #5.42/Q:115 #5.43/R:115 #5.44/S:115 #5.45/T:115 #5.46/U:115
> #5.47/V:115 #5.48/W:115 #5.49/X:115 #5.50/Y:115 #5.51/Z:115 #5.52/a:115
> #5.53/b:115 #5.54/c:115 #5.55/d:115 #5.56/e:115 #5.57/f:115 #5.58/g:115
> #5.59/h:115 #5.60/i:115 #5.61/j:115 #5.62/k:115 #5.63/l:115 #5.64/m:115
> #5.65/n:115 #5.66/o:115 #5.67/p:115 #5.68/q:115 #5.69/r:115 #5.70/s:115
> #5.71/t:115 #5.72/u:115 #5.73/v:115 #5.74/w:115 #5.75/x:115 #5.76/y:115
> #5.77/z:115
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [115] RMSD: 167.880
> color sel red
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select clear
> color #5 #feff46ff models
> color #5 #fff6b6ff models
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 167.782
> color sel magenta
> select clear
> ui tool show "Volume Viewer"
> hide #!201 models
> show #!201 models
> volume #201.1 level 0.055
> volume #201.2 level 0.055
> volume #201.4 level 0.055
> volume #201.5 level 0.055
> volume #201.6 level 0.055
> volume #201.7 level 0.055
> volume #201.8 level 0.055
> volume #201.10 level 0.055
> volume #201.9 level 0.055
> volume #201.11 level 0.055
> volume #201.12 level 0.055
> volume #201.13 level 0.055
> volume #201.14 level 0.055
> volume #201.15 level 0.055
> volume #201.16 level 0.055
> volume #201.17 level 0.055
> volume #201.18 level 0.055
> volume #201.19 level 0.055
> volume #201.20 level 0.055
> volume #201.21 level 0.055
> volume #201.22 level 0.055
> volume #201.23 level 0.055
> select add #201
47 models selected
> select subtract #201
Nothing selected
> select add #201.1
2 models selected
> lighting soft
> select add #201.2
4 models selected
> select add #201.3
6 models selected
> select add #201.4
8 models selected
> select add #201
47 models selected
> select subtract #201
Nothing selected
> select add #201.1
2 models selected
> select subtract #201.1
Nothing selected
> select add #201.2
2 models selected
> select subtract #201.2
Nothing selected
> select add #201.1
2 models selected
> select subtract #201.1
Nothing selected
> select add #201.2
2 models selected
> select subtract #201.2
Nothing selected
> select add #201.3
2 models selected
> select subtract #201.3
Nothing selected
> select add #201.4
2 models selected
> select subtract #201.4
Nothing selected
> select add #201.5
2 models selected
> select subtract #201.5
Nothing selected
> select add #201.6
2 models selected
> select subtract #201.6
Nothing selected
> select add #201.3
2 models selected
> select subtract #201.3
Nothing selected
> show #!200 models
> hide #!200 models
> show #!30 models
> fitmap #30 inMap #6
Fit map S115_glycan_all in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 7195 points
correlation = 0.6668, correlation about mean = 0.3125, overlap = 897.7
steps = 36, shift = 0.482, angle = 0.191 degrees
Position of S115_glycan_all (#30) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.16094314 0.98676225 -0.01994051 37.08655389
-0.98693782 -0.16105240 -0.00398950 410.72133150
-0.00714815 0.01903796 0.99979323 15.64002597
Axis 0.01166611 -0.00648083 -0.99991095
Axis point 193.15774788 189.45816283 0.00000000
Rotation angle (degrees) 99.27081666
Shift along axis -17.86779347
> combine #5
> hide #14 models
> hide #!5 models
> show #!1 models
> hide #!6 models
> show #!6 models
> fitmap #6 inMap #1
Fit map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone in map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc using 283482 points
correlation = 1, correlation about mean = 0.9998, overlap = 2.083e+05
steps = 40, shift = 0.0267, angle = 0.00516 degrees
Position of J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) relative
to J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
1.00000000 -0.00002712 0.00003893 0.00459755
0.00002711 1.00000000 0.00003085 -0.00062344
-0.00003893 -0.00003085 1.00000000 0.01270342
Axis -0.54513704 0.68793139 0.47914090
Axis point 287.52412618 0.00000000 -162.22033886
Rotation angle (degrees) 0.00324241
Shift along axis 0.00315155
> fitmap #6 inMap #1
Fit map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone in map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc using 283482 points
correlation = 1, correlation about mean = 0.9997, overlap = 2.08e+05
steps = 28, shift = 0.00468, angle = 0.00433 degrees
Position of J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) relative
to J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc (#1) coordinates:
Matrix rotation and translation
1.00000000 -0.00002727 -0.00001230 0.01748868
0.00002727 1.00000000 -0.00002461 0.01333670
0.00001230 0.00002461 1.00000000 -0.00721220
Axis 0.63531875 -0.31745958 0.70398118
Axis point -509.97057324 599.35517468 0.00000000
Rotation angle (degrees) 0.00221959
Shift along axis 0.00179977
> fitmap #30 inMap #6
Fit map S115_glycan_all in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 7195 points
correlation = 0.6668, correlation about mean = 0.3124, overlap = 897.7
steps = 40, shift = 0.0465, angle = 0.0113 degrees
Position of S115_glycan_all (#30) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.16091235 0.98676796 -0.01990619 37.07715527
-0.98694255 -0.16102225 -0.00403684 410.74077518
-0.00718876 0.01899669 0.99979372 15.64898456
Axis 0.01166913 -0.00644284 -0.99991116
Axis point 193.16716162 189.47166076 0.00000000
Rotation angle (degrees) 99.26903367
Shift along axis -17.86127359
> hide #!1 models
> fitmap #14 inMap #6
Fit molecule combination (#14) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 168014 atoms
average map value = 0.2885, steps = 40
shifted from previous position = 0.0333
rotated from previous position = 0.00873 degrees
atoms outside contour = 130082, contour level = 0.5
Position of combination (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99729139 0.07276231 -0.01074831 -12.23459048
-0.07284294 0.99731663 -0.00731042 15.10457146
0.01018754 0.00807355 0.99991551 101.61444560
Axis 0.10401258 -0.14154940 -0.98445170
Axis point 5.58769840 20.47945484 0.00000000
Rotation angle (degrees) 4.24103539
Shift along axis -103.44510812
> show #14 models
> fitmap #14 inMap #6
Fit molecule combination (#14) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 168014 atoms
average map value = 0.2885, steps = 40
shifted from previous position = 0.0193
rotated from previous position = 0.00351 degrees
atoms outside contour = 130079, contour level = 0.5
Position of combination (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99729200 0.07276057 -0.01070324 -12.22558974
-0.07284126 0.99731645 -0.00735201 15.09732391
0.01013958 0.00811174 0.99991569 101.60800062
Axis 0.10455778 -0.14092817 -0.98448307
Axis point 6.41722254 19.62321069 0.00000000
Rotation angle (degrees) 4.24080050
Shift along axis -103.43727546
> fitmap #14 inMap #6
Fit molecule combination (#14) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 168014 atoms
average map value = 0.2885, steps = 36
shifted from previous position = 0.000947
rotated from previous position = 0.000553 degrees
atoms outside contour = 130069, contour level = 0.5
Position of combination (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99729191 0.07276139 -0.01070675 -12.22456928
-0.07284201 0.99731646 -0.00734305 15.09618199
0.01014372 0.00810306 0.99991572 101.60852553
Axis 0.10443795 -0.14097919 -0.98448849
Axis point 6.32320613 19.77566374 0.00000000
Rotation angle (degrees) 4.24082277
Shift along axis -103.43738011
> show #!5 models
> hide #!5 models
> show #!5 models
> mmaker #5 to #14
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb 0, chain 0 (#5.1), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 1, chain 1 (#5.2), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb 2, chain 2 (#5.3), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.168 angstroms; (across all 286 pairs:
0.168)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 3, chain 3 (#5.4), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.117 angstroms; (across all 286 pairs:
0.117)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 4, chain 4 (#5.5), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.101 angstroms; (across all 286 pairs:
0.101)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 5, chain 5 (#5.6), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.112 angstroms; (across all 286 pairs:
0.112)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 6, chain 6 (#5.7), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.107 angstroms; (across all 286 pairs:
0.107)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb 7, chain 7 (#5.8), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.078 angstroms; (across all 286 pairs:
0.078)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 8, chain 8 (#5.9), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.148 angstroms; (across all 286 pairs:
0.148)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 9, chain 9 (#5.10), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.130 angstroms; (across all 286 pairs:
0.130)
Matchmaker combination, chain AA (#14) with
FlaB1_core_long_Asym_map_related.pdb AA, chain AA (#5.11), sequence alignment
score = 1446.2
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AB, chain AB (#5.12), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.133 angstroms; (across all 286 pairs:
0.133)
Matchmaker combination, chain AC (#14) with
FlaB1_core_long_Asym_map_related.pdb AC, chain AC (#5.13), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AD, chain AD (#5.14), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.162 angstroms; (across all 286 pairs:
0.162)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AE, chain AE (#5.15), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.263 angstroms; (across all 286 pairs:
0.263)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AF, chain AF (#5.16), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AG, chain AG (#5.17), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.136 angstroms; (across all 286 pairs:
0.136)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AH, chain AH (#5.18), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.092 angstroms; (across all 286 pairs:
0.092)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AI, chain AI (#5.19), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.125 angstroms; (across all 286 pairs:
0.125)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AJ, chain AJ (#5.20), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.074 angstroms; (across all 286 pairs:
0.074)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AK, chain AK (#5.21), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.118 angstroms; (across all 286 pairs:
0.118)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AL, chain AL (#5.22), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AM, chain AM (#5.23), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.131 angstroms; (across all 286 pairs:
0.131)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AN, chain AN (#5.24), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AO, chain AO (#5.25), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.117 angstroms; (across all 286 pairs:
0.117)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AP, chain AP (#5.26), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.101 angstroms; (across all 286 pairs:
0.101)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb B, chain B (#5.27), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.112 angstroms; (across all 286 pairs:
0.112)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb C, chain C (#5.28), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.161 angstroms; (across all 286 pairs:
0.161)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb D, chain D (#5.29), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.107 angstroms; (across all 286 pairs:
0.107)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb E, chain E (#5.30), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.078 angstroms; (across all 286 pairs:
0.078)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb F, chain F (#5.31), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.188 angstroms; (across all 286 pairs:
0.188)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb G, chain G (#5.32), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.161 angstroms; (across all 286 pairs:
0.161)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb H, chain H (#5.33), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.107 angstroms; (across all 286 pairs:
0.107)
Matchmaker combination, chain I (#14) with
FlaB1_core_long_Asym_map_related.pdb I, chain I (#5.34), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb J, chain J (#5.35), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb K, chain K (#5.36), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.225 angstroms; (across all 286 pairs:
0.225)
Matchmaker combination, chain AA (#14) with
FlaB1_core_long_Asym_map_related.pdb L, chain L (#5.37), sequence alignment
score = 1446.2
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb M, chain M (#5.38), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.078 angstroms; (across all 286 pairs:
0.078)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb N, chain N (#5.39), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.172 angstroms; (across all 286 pairs:
0.172)
Matchmaker combination, chain AC (#14) with
FlaB1_core_long_Asym_map_related.pdb O, chain O (#5.40), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb P, chain P (#5.41), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.188 angstroms; (across all 286 pairs:
0.188)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb Q, chain Q (#5.42), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.148 angstroms; (across all 286 pairs:
0.148)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb R, chain R (#5.43), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.157 angstroms; (across all 286 pairs:
0.157)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb S, chain S (#5.44), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb T, chain T (#5.45), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.116 angstroms; (across all 286 pairs:
0.116)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb U, chain U (#5.46), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.136 angstroms; (across all 286 pairs:
0.136)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb V, chain V (#5.47), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.130 angstroms; (across all 286 pairs:
0.130)
Matchmaker combination, chain I (#14) with
FlaB1_core_long_Asym_map_related.pdb W, chain W (#5.48), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.001 angstroms; (across all 286 pairs:
0.001)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb X, chain X (#5.49), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.133 angstroms; (across all 286 pairs:
0.133)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb Y, chain Y (#5.50), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.074 angstroms; (across all 286 pairs:
0.074)
Matchmaker combination, chain Z (#14) with
FlaB1_core_long_Asym_map_related.pdb Z, chain Z (#5.51), sequence alignment
score = 1445
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb a, chain a (#5.52), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.118 angstroms; (across all 286 pairs:
0.118)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb b, chain b (#5.53), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb c, chain c (#5.54), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.225 angstroms; (across all 286 pairs:
0.225)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb d, chain d (#5.55), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.111 angstroms; (across all 286 pairs:
0.111)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb e, chain e (#5.56), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb f, chain f (#5.57), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.168 angstroms; (across all 286 pairs:
0.168)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb g, chain g (#5.58), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.117 angstroms; (across all 286 pairs:
0.117)
Matchmaker combination, chain AA (#14) with
FlaB1_core_long_Asym_map_related.pdb h, chain h (#5.59), sequence alignment
score = 1446.2
RMSD between 286 pruned atom pairs is 0.001 angstroms; (across all 286 pairs:
0.001)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb i, chain i (#5.60), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.133 angstroms; (across all 286 pairs:
0.133)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb j, chain j (#5.61), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.172 angstroms; (across all 286 pairs:
0.172)
Matchmaker combination, chain AC (#14) with
FlaB1_core_long_Asym_map_related.pdb k, chain k (#5.62), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb l, chain l (#5.63), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.162 angstroms; (across all 286 pairs:
0.162)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb m, chain m (#5.64), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.263 angstroms; (across all 286 pairs:
0.263)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb n, chain n (#5.65), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.157 angstroms; (across all 286 pairs:
0.157)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb o, chain o (#5.66), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb p, chain p (#5.67), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.116 angstroms; (across all 286 pairs:
0.116)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb q, chain q (#5.68), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.136 angstroms; (across all 286 pairs:
0.136)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb r, chain r (#5.69), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.092 angstroms; (across all 286 pairs:
0.092)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb s, chain s (#5.70), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.125 angstroms; (across all 286 pairs:
0.125)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb t, chain t (#5.71), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.133 angstroms; (across all 286 pairs:
0.133)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb u, chain u (#5.72), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.074 angstroms; (across all 286 pairs:
0.074)
Matchmaker combination, chain Z (#14) with
FlaB1_core_long_Asym_map_related.pdb v, chain v (#5.73), sequence alignment
score = 1445
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb w, chain w (#5.74), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.118 angstroms; (across all 286 pairs:
0.118)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb x, chain x (#5.75), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb y, chain y (#5.76), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.131 angstroms; (across all 286 pairs:
0.131)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb z, chain z (#5.77), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.111 angstroms; (across all 286 pairs:
0.111)
> mmaker #5 to #14
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb 0, chain 0 (#5.1), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 1, chain 1 (#5.2), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb 2, chain 2 (#5.3), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.168 angstroms; (across all 286 pairs:
0.168)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 3, chain 3 (#5.4), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.117 angstroms; (across all 286 pairs:
0.117)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 4, chain 4 (#5.5), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.101 angstroms; (across all 286 pairs:
0.101)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 5, chain 5 (#5.6), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.112 angstroms; (across all 286 pairs:
0.112)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 6, chain 6 (#5.7), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.107 angstroms; (across all 286 pairs:
0.107)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb 7, chain 7 (#5.8), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.078 angstroms; (across all 286 pairs:
0.078)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 8, chain 8 (#5.9), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.148 angstroms; (across all 286 pairs:
0.148)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb 9, chain 9 (#5.10), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.130 angstroms; (across all 286 pairs:
0.130)
Matchmaker combination, chain AA (#14) with
FlaB1_core_long_Asym_map_related.pdb AA, chain AA (#5.11), sequence alignment
score = 1446.2
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AB, chain AB (#5.12), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.133 angstroms; (across all 286 pairs:
0.133)
Matchmaker combination, chain AC (#14) with
FlaB1_core_long_Asym_map_related.pdb AC, chain AC (#5.13), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AD, chain AD (#5.14), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.162 angstroms; (across all 286 pairs:
0.162)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AE, chain AE (#5.15), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.263 angstroms; (across all 286 pairs:
0.263)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AF, chain AF (#5.16), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AG, chain AG (#5.17), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.136 angstroms; (across all 286 pairs:
0.136)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AH, chain AH (#5.18), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.092 angstroms; (across all 286 pairs:
0.092)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AI, chain AI (#5.19), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.125 angstroms; (across all 286 pairs:
0.125)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AJ, chain AJ (#5.20), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.074 angstroms; (across all 286 pairs:
0.074)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AK, chain AK (#5.21), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.118 angstroms; (across all 286 pairs:
0.118)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AL, chain AL (#5.22), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AM, chain AM (#5.23), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.131 angstroms; (across all 286 pairs:
0.131)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AN, chain AN (#5.24), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AO, chain AO (#5.25), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.117 angstroms; (across all 286 pairs:
0.117)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb AP, chain AP (#5.26), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.101 angstroms; (across all 286 pairs:
0.101)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb B, chain B (#5.27), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.112 angstroms; (across all 286 pairs:
0.112)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb C, chain C (#5.28), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.161 angstroms; (across all 286 pairs:
0.161)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb D, chain D (#5.29), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.107 angstroms; (across all 286 pairs:
0.107)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb E, chain E (#5.30), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.078 angstroms; (across all 286 pairs:
0.078)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb F, chain F (#5.31), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.188 angstroms; (across all 286 pairs:
0.188)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb G, chain G (#5.32), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.161 angstroms; (across all 286 pairs:
0.161)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb H, chain H (#5.33), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.107 angstroms; (across all 286 pairs:
0.107)
Matchmaker combination, chain I (#14) with
FlaB1_core_long_Asym_map_related.pdb I, chain I (#5.34), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb J, chain J (#5.35), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb K, chain K (#5.36), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.225 angstroms; (across all 286 pairs:
0.225)
Matchmaker combination, chain AA (#14) with
FlaB1_core_long_Asym_map_related.pdb L, chain L (#5.37), sequence alignment
score = 1446.2
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb M, chain M (#5.38), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.078 angstroms; (across all 286 pairs:
0.078)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb N, chain N (#5.39), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.172 angstroms; (across all 286 pairs:
0.172)
Matchmaker combination, chain AC (#14) with
FlaB1_core_long_Asym_map_related.pdb O, chain O (#5.40), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb P, chain P (#5.41), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.188 angstroms; (across all 286 pairs:
0.188)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb Q, chain Q (#5.42), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.148 angstroms; (across all 286 pairs:
0.148)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb R, chain R (#5.43), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.157 angstroms; (across all 286 pairs:
0.157)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb S, chain S (#5.44), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb T, chain T (#5.45), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.116 angstroms; (across all 286 pairs:
0.116)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb U, chain U (#5.46), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.136 angstroms; (across all 286 pairs:
0.136)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb V, chain V (#5.47), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.130 angstroms; (across all 286 pairs:
0.130)
Matchmaker combination, chain I (#14) with
FlaB1_core_long_Asym_map_related.pdb W, chain W (#5.48), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.001 angstroms; (across all 286 pairs:
0.001)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb X, chain X (#5.49), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.133 angstroms; (across all 286 pairs:
0.133)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb Y, chain Y (#5.50), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.074 angstroms; (across all 286 pairs:
0.074)
Matchmaker combination, chain Z (#14) with
FlaB1_core_long_Asym_map_related.pdb Z, chain Z (#5.51), sequence alignment
score = 1445
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb a, chain a (#5.52), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.118 angstroms; (across all 286 pairs:
0.118)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb b, chain b (#5.53), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb c, chain c (#5.54), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.225 angstroms; (across all 286 pairs:
0.225)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb d, chain d (#5.55), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.111 angstroms; (across all 286 pairs:
0.111)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb e, chain e (#5.56), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb f, chain f (#5.57), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.168 angstroms; (across all 286 pairs:
0.168)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb g, chain g (#5.58), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.117 angstroms; (across all 286 pairs:
0.117)
Matchmaker combination, chain AA (#14) with
FlaB1_core_long_Asym_map_related.pdb h, chain h (#5.59), sequence alignment
score = 1446.2
RMSD between 286 pruned atom pairs is 0.001 angstroms; (across all 286 pairs:
0.001)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb i, chain i (#5.60), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.133 angstroms; (across all 286 pairs:
0.133)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb j, chain j (#5.61), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.172 angstroms; (across all 286 pairs:
0.172)
Matchmaker combination, chain AC (#14) with
FlaB1_core_long_Asym_map_related.pdb k, chain k (#5.62), sequence alignment
score = 1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb l, chain l (#5.63), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.162 angstroms; (across all 286 pairs:
0.162)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb m, chain m (#5.64), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.263 angstroms; (across all 286 pairs:
0.263)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb n, chain n (#5.65), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.157 angstroms; (across all 286 pairs:
0.157)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb o, chain o (#5.66), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb p, chain p (#5.67), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.116 angstroms; (across all 286 pairs:
0.116)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb q, chain q (#5.68), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.136 angstroms; (across all 286 pairs:
0.136)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb r, chain r (#5.69), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.092 angstroms; (across all 286 pairs:
0.092)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb s, chain s (#5.70), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.125 angstroms; (across all 286 pairs:
0.125)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb t, chain t (#5.71), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.133 angstroms; (across all 286 pairs:
0.133)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb u, chain u (#5.72), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.074 angstroms; (across all 286 pairs:
0.074)
Matchmaker combination, chain Z (#14) with
FlaB1_core_long_Asym_map_related.pdb v, chain v (#5.73), sequence alignment
score = 1445
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb w, chain w (#5.74), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.118 angstroms; (across all 286 pairs:
0.118)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb x, chain x (#5.75), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.128 angstroms; (across all 286 pairs:
0.128)
Matchmaker combination, chain 1 (#14) with
FlaB1_core_long_Asym_map_related.pdb y, chain y (#5.76), sequence alignment
score = 1443.8
RMSD between 286 pruned atom pairs is 0.131 angstroms; (across all 286 pairs:
0.131)
Matchmaker combination, chain 0 (#14) with
FlaB1_core_long_Asym_map_related.pdb z, chain z (#5.77), sequence alignment
score = 1445.6
RMSD between 286 pruned atom pairs is 0.111 angstroms; (across all 286 pairs:
0.111)
> close #14
> color #201 #ff97f2ff models
> color #201 #ff4bf9ff models
> color #201 #ff97f2ff models
> color #201.1 #ff97f2ff models
> color #201.2 #ff97f2ff models
> color #201.3 #ff97f2ff models
> select add #201
47 models selected
> select subtract #201
Nothing selected
> hide #!30 models
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 112.028
> select add #201
462 atoms, 385 bonds, 77 residues, 124 models selected
> color #201 #ff4bf9ff models
> select subtract #201
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
> select #5.1/0:126 #5.2/1:126 #5.3/2:126 #5.4/3:126 #5.5/4:126 #5.6/5:126
> #5.7/6:126 #5.8/7:126 #5.9/8:126 #5.10/9:126 #5.11/AA:126 #5.12/AB:126
> #5.13/AC:126 #5.14/AD:126 #5.15/AE:126 #5.16/AF:126 #5.17/AG:126
> #5.18/AH:126 #5.19/AI:126 #5.20/AJ:126 #5.21/AK:126 #5.22/AL:126
> #5.23/AM:126 #5.24/AN:126 #5.25/AO:126 #5.26/AP:126 #5.27/B:126 #5.28/C:126
> #5.29/D:126 #5.30/E:126 #5.31/F:126 #5.32/G:126 #5.33/H:126 #5.34/I:126
> #5.35/J:126 #5.36/K:126 #5.37/L:126 #5.38/M:126 #5.39/N:126 #5.40/O:126
> #5.41/P:126 #5.42/Q:126 #5.43/R:126 #5.44/S:126 #5.45/T:126 #5.46/U:126
> #5.47/V:126 #5.48/W:126 #5.49/X:126 #5.50/Y:126 #5.51/Z:126 #5.52/a:126
> #5.53/b:126 #5.54/c:126 #5.55/d:126 #5.56/e:126 #5.57/f:126 #5.58/g:126
> #5.59/h:126 #5.60/i:126 #5.61/j:126 #5.62/k:126 #5.63/l:126 #5.64/m:126
> #5.65/n:126 #5.66/o:126 #5.67/p:126 #5.68/q:126 #5.69/r:126 #5.70/s:126
> #5.71/t:126 #5.72/u:126 #5.73/v:126 #5.74/w:126 #5.75/x:126 #5.76/y:126
> #5.77/z:126
462 atoms, 385 bonds, 77 residues, 77 models selected
1 [ID: 1] region 77 chains [126] RMSD: 112.028
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
> show #!59 models
> select add #59
86328 atoms, 88077 bonds, 10824 residues, 34 models selected
> hide #!59 models
> select subtract #59
8 models selected
> show #13 models
> hide #13 models
> show #13 models
> hide #13 models
> hide #!6 models
> show #!5 models
> hide #!5 models
> hide #5.77 models
> show #5.77 models
> hide #5.76 models
> hide #5.75 models
> show #5.75 models
> show #5.76 models
> select add #5.76
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> select add #5.75
4364 atoms, 4390 bonds, 572 residues, 2 models selected
> select add #5.74
6546 atoms, 6585 bonds, 858 residues, 3 models selected
> select add #5.73
8728 atoms, 8780 bonds, 1144 residues, 4 models selected
> select add #5.72
10910 atoms, 10975 bonds, 1430 residues, 5 models selected
> select subtract #5.72
8728 atoms, 8780 bonds, 1144 residues, 4 models selected
> select add #5.71
10910 atoms, 10975 bonds, 1430 residues, 5 models selected
> hide #!5 models
> select add #5
168014 atoms, 169015 bonds, 22022 residues, 78 models selected
> select subtract #5
Nothing selected
> show #!5 models
> hide #!5 models
> show #3 models
> hide #3 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaB1_core_monox33_real_refine.pdb
Chain information for FlaB1_core_monox33_real_refine.pdb #14
---
Chain | Description
B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h | No description available
> show #14 atoms
> hide #14 atoms
> show #14 cartoons
> show #!2 models
> hide #!2 models
> show #!5 models
> hide #!5 models
> close #5
> show #!6 models
> select add #14
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.39273,0.82702,-0.40226,191,0.87408,0.47165,0.11632,-90.146,0.28592,-0.30593,-0.90811,395.42
> view matrix models
> #14,-0.38432,0.84581,-0.37002,179.17,0.86627,0.46895,0.17221,-99.604,0.31918,-0.25435,-0.91293,380.16
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.38432,0.84581,-0.37002,187.02,0.86627,0.46895,0.17221,-103.09,0.31918,-0.25435,-0.91293,405.35
> view matrix models
> #14,-0.38432,0.84581,-0.37002,171.86,0.86627,0.46895,0.17221,-95.069,0.31918,-0.25435,-0.91293,413.19
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.40868,0.90871,-0.08502,105.98,0.91142,0.41123,0.014228,-60.239,0.047892,-0.071674,-0.99628,447.28
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.40868,0.90871,-0.08502,113.27,0.91142,0.41123,0.014228,-64.44,0.047892,-0.071674,-0.99628,446.58
> view matrix models
> #14,-0.40868,0.90871,-0.08502,117.31,0.91142,0.41123,0.014228,-71.11,0.047892,-0.071674,-0.99628,490.52
> view matrix models
> #14,-0.40868,0.90871,-0.08502,111.23,0.91142,0.41123,0.014228,-61.526,0.047892,-0.071674,-0.99628,439.47
> view matrix models
> #14,-0.40868,0.90871,-0.08502,109.97,0.91142,0.41123,0.014228,-61.652,0.047892,-0.071674,-0.99628,478.28
> view matrix models
> #14,-0.40868,0.90871,-0.08502,106.57,0.91142,0.41123,0.014228,-55,0.047892,-0.071674,-0.99628,479.55
> view matrix models
> #14,-0.40868,0.90871,-0.08502,104.97,0.91142,0.41123,0.014228,-36.888,0.047892,-0.071674,-0.99628,495.42
> view matrix models
> #14,-0.40868,0.90871,-0.08502,105.69,0.91142,0.41123,0.014228,-39.841,0.047892,-0.071674,-0.99628,492.62
> view matrix models
> #14,-0.40868,0.90871,-0.08502,108.49,0.91142,0.41123,0.014228,-57.914,0.047892,-0.071674,-0.99628,493.01
> view matrix models
> #14,-0.40868,0.90871,-0.08502,109.01,0.91142,0.41123,0.014228,-62.822,0.047892,-0.071674,-0.99628,493.16
> view matrix models
> #14,-0.40868,0.90871,-0.08502,112.19,0.91142,0.41123,0.014228,-63.866,0.047892,-0.071674,-0.99628,492.19
> view matrix models
> #14,-0.40868,0.90871,-0.08502,117.05,0.91142,0.41123,0.014228,-62.857,0.047892,-0.071674,-0.99628,492.12
> view matrix models
> #14,-0.40868,0.90871,-0.08502,112.7,0.91142,0.41123,0.014228,-64.876,0.047892,-0.071674,-0.99628,489.51
> fitmap #14 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#14) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 72006 atoms
average map value = 0.3109, steps = 112
shifted from previous position = 4.22
rotated from previous position = 6 degrees
atoms outside contour = 53473, contour level = 0.5
Position of FlaB1_core_monox33_real_refine.pdb (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.37210813 0.92767159 0.03099979 76.72713234
0.92818801 0.37184225 0.01415517 -61.67155663
0.00160432 0.03404089 -0.99941916 475.78705384
Axis 0.56026053 0.82818865 0.01454982
Axis point 61.77277542 0.00000000 238.02068841
Rotation angle (degrees) 178.98312709
Shift along axis -1.16588342
> select subtract #14
Nothing selected
> select add #14
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> view matrix models
> #14,-0.39528,0.91839,0.017738,86.624,0.91855,0.39528,0.0039463,-64.537,-0.0033871,0.017853,-0.99983,505.6
> view matrix models
> #14,-0.39528,0.91839,0.017738,88.889,0.91855,0.39528,0.0039463,-63.085,-0.0033871,0.017853,-0.99983,510.21
> view matrix models
> #14,-0.39528,0.91839,0.017738,88.673,0.91855,0.39528,0.0039463,-66.55,-0.0033871,0.017853,-0.99983,488.94
> view matrix models
> #14,-0.39528,0.91839,0.017738,90.03,0.91855,0.39528,0.0039463,-60.961,-0.0033871,0.017853,-0.99983,479.42
> fitmap #14 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#14) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 72006 atoms
average map value = 0.3109, steps = 80
shifted from previous position = 3.94
rotated from previous position = 0.0046 degrees
atoms outside contour = 53470, contour level = 0.5
Position of FlaB1_core_monox33_real_refine.pdb (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.37207482 0.92768600 0.03096821 76.72990973
0.92820144 0.37181121 0.01408980 -61.65800834
0.00155658 0.03398719 -0.99942106 475.80843833
Axis 0.56027534 0.82817926 0.01451404
Axis point 61.77194214 -0.00000000 238.02967706
Rotation angle (degrees) 178.98255688
Shift along axis -1.16810464
> view matrix models
> #14,-0.39525,0.9184,0.017708,84.552,0.91857,0.39525,0.0038801,-60.473,-0.0034355,0.0178,-0.99984,528.9
> fitmap #14 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#14) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 72006 atoms
average map value = 0.241, steps = 160
shifted from previous position = 2.89
rotated from previous position = 1.63 degrees
atoms outside contour = 61423, contour level = 0.5
Position of FlaB1_core_monox33_real_refine.pdb (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.34852859 0.93641351 0.04071336 66.59908496
0.93727477 0.34788404 0.02219749 -61.66018663
0.00662250 0.04589606 -0.99892428 524.79675529
Axis 0.57066889 0.82091833 0.02073927
Axis point 58.05042824 0.00000000 262.74984192
Rotation angle (degrees) 178.81023322
Shift along axis -1.72804786
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaB1_core_monox33_real_refine.pdb
Chain information for FlaB1_core_monox33_real_refine.pdb #5
---
Chain | Description
B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h | No description available
> select subtract #14
Nothing selected
> select add #5
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> hide sel atoms
> show sel cartoons
> mmaker #5 to #14
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaB1_core_monox33_real_refine.pdb, chain I (#14) with
FlaB1_core_monox33_real_refine.pdb, chain I (#5), sequence alignment score =
1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
> ui mousemode right select
> ui mousemode right "translate selected models"
> select subtract #5
Nothing selected
> select add #5
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> view matrix models
> #5,-0.37188,0.92788,0.027252,80.22,0.92828,0.37168,0.012234,-57.153,0.0012229,0.029847,-0.99955,514.44
> view matrix models
> #5,-0.37188,0.92788,0.027252,60.404,0.92828,0.37168,0.012234,-66.408,0.0012229,0.029847,-0.99955,375.29
> view matrix models
> #5,-0.37188,0.92788,0.027252,59.181,0.92828,0.37168,0.012234,-55.48,0.0012229,0.029847,-0.99955,375.08
> view matrix models
> #5,-0.37188,0.92788,0.027252,71.632,0.92828,0.37168,0.012234,-63.756,0.0012229,0.029847,-0.99955,371.35
> view matrix models
> #5,-0.37188,0.92788,0.027252,71.116,0.92828,0.37168,0.012234,-52.65,0.0012229,0.029847,-0.99955,370.98
> view matrix models
> #5,-0.37188,0.92788,0.027252,79.13,0.92828,0.37168,0.012234,-53.765,0.0012229,0.029847,-0.99955,370.14
> view matrix models
> #5,-0.37188,0.92788,0.027252,79.533,0.92828,0.37168,0.012234,-54.686,0.0012229,0.029847,-0.99955,370.83
> fitmap #5 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#5) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 72006 atoms
average map value = 0.4053, steps = 84
shifted from previous position = 5.08
rotated from previous position = 4.9 degrees
atoms outside contour = 45468, contour level = 0.5
Position of FlaB1_core_monox33_real_refine.pdb (#5) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.41924698 0.90777748 0.01311522 95.18518014
0.90783565 0.41931600 -0.00291805 -62.74885403
-0.00814836 0.01068307 -0.99990973 377.28547263
Axis 0.53883973 0.84240515 0.00230451
Axis point 69.07423347 0.00000000 188.37062473
Rotation angle (degrees) 179.27686478
Shift along axis -0.70094281
> select subtract #5
Nothing selected
> select add #6
3 models selected
> select add #6
3 models selected
> select add #6
3 models selected
> select add #6
3 models selected
> select add #6
3 models selected
> select add #6
3 models selected
> select add #6
3 models selected
> select add #6
3 models selected
> show #6.2 models
> select add #6.2
3 models selected
> select add #6.2
3 models selected
> close #6.2
> select subtract #6
Nothing selected
> select add #5
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> select subtract #5
Nothing selected
> select add #14
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> select subtract #14
Nothing selected
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaB1_core_monox33_real_refine.pdb
Chain information for FlaB1_core_monox33_real_refine.pdb #15
---
Chain | Description
B C D E F G H I J K L M N O P Q R S T U V W X Y Z a b c d e f g h | No description available
> show #5,14-15 cartoons
> hide #5,14-15 atoms
> mmaker #15 to #14
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaB1_core_monox33_real_refine.pdb, chain I (#14) with
FlaB1_core_monox33_real_refine.pdb, chain I (#15), sequence alignment score =
1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
> select add #15
72006 atoms, 72435 bonds, 9438 residues, 1 model selected
> mmaker #15 to #5
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaB1_core_monox33_real_refine.pdb, chain I (#5) with
FlaB1_core_monox33_real_refine.pdb, chain I (#15), sequence alignment score =
1446.8
RMSD between 286 pruned atom pairs is 0.000 angstroms; (across all 286 pairs:
0.000)
> view matrix models
> #15,-0.44202,0.89701,0.00028347,92.207,0.89692,0.44198,-0.013573,-65.37,-0.012301,-0.0057453,-0.99991,222.98
> view matrix models
> #15,-0.44202,0.89701,0.00028347,98.916,0.89692,0.44198,-0.013573,-62.208,-0.012301,-0.0057453,-0.99991,222.59
> view matrix models
> #15,-0.44202,0.89701,0.00028347,97.908,0.89692,0.44198,-0.013573,-68.942,-0.012301,-0.0057453,-0.99991,222.26
> view matrix models
> #15,-0.44202,0.89701,0.00028347,101.36,0.89692,0.44198,-0.013573,-65.998,-0.012301,-0.0057453,-0.99991,223.67
> view matrix models
> #15,-0.44202,0.89701,0.00028347,100.11,0.89692,0.44198,-0.013573,-68.325,-0.012301,-0.0057453,-0.99991,223.55
> fitmap #15 inMap #6
Fit molecule FlaB1_core_monox33_real_refine.pdb (#15) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 72006 atoms
average map value = 0.209, steps = 96
shifted from previous position = 1.46
rotated from previous position = 4.82 degrees
atoms outside contour = 63929, contour level = 0.5
Position of FlaB1_core_monox33_real_refine.pdb (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.48754875 0.87306736 -0.00704275 118.36363049
0.87277970 0.48713937 -0.03083544 -66.82669352
-0.02349061 -0.02118055 -0.99949966 228.82133106
Axis 0.50617064 0.86230149 -0.01508091
Axis point 79.42810236 0.00000000 113.49737914
Rotation angle (degrees) 179.45355114
Shift along axis -1.16339710
> select subtract #15
Nothing selected
> hide #!6 models
> show #!6 models
> combine #5,14,15
Remapping chain ID 'B' in FlaB1_core_monox33_real_refine.pdb #14 to 'i'
Remapping chain ID 'C' in FlaB1_core_monox33_real_refine.pdb #14 to 'j'
Remapping chain ID 'D' in FlaB1_core_monox33_real_refine.pdb #14 to 'k'
Remapping chain ID 'E' in FlaB1_core_monox33_real_refine.pdb #14 to 'l'
Remapping chain ID 'F' in FlaB1_core_monox33_real_refine.pdb #14 to 'm'
Remapping chain ID 'G' in FlaB1_core_monox33_real_refine.pdb #14 to 'n'
Remapping chain ID 'H' in FlaB1_core_monox33_real_refine.pdb #14 to 'o'
Remapping chain ID 'I' in FlaB1_core_monox33_real_refine.pdb #14 to 'p'
Remapping chain ID 'J' in FlaB1_core_monox33_real_refine.pdb #14 to 'q'
Remapping chain ID 'K' in FlaB1_core_monox33_real_refine.pdb #14 to 'r'
Remapping chain ID 'L' in FlaB1_core_monox33_real_refine.pdb #14 to 's'
Remapping chain ID 'M' in FlaB1_core_monox33_real_refine.pdb #14 to 't'
Remapping chain ID 'N' in FlaB1_core_monox33_real_refine.pdb #14 to 'u'
Remapping chain ID 'O' in FlaB1_core_monox33_real_refine.pdb #14 to 'v'
Remapping chain ID 'P' in FlaB1_core_monox33_real_refine.pdb #14 to 'w'
Remapping chain ID 'Q' in FlaB1_core_monox33_real_refine.pdb #14 to 'x'
Remapping chain ID 'R' in FlaB1_core_monox33_real_refine.pdb #14 to 'y'
Remapping chain ID 'S' in FlaB1_core_monox33_real_refine.pdb #14 to 'z'
Remapping chain ID 'T' in FlaB1_core_monox33_real_refine.pdb #14 to '1'
Remapping chain ID 'U' in FlaB1_core_monox33_real_refine.pdb #14 to '2'
Remapping chain ID 'V' in FlaB1_core_monox33_real_refine.pdb #14 to '3'
Remapping chain ID 'W' in FlaB1_core_monox33_real_refine.pdb #14 to '4'
Remapping chain ID 'X' in FlaB1_core_monox33_real_refine.pdb #14 to '5'
Remapping chain ID 'Y' in FlaB1_core_monox33_real_refine.pdb #14 to '6'
Remapping chain ID 'Z' in FlaB1_core_monox33_real_refine.pdb #14 to '7'
Remapping chain ID 'a' in FlaB1_core_monox33_real_refine.pdb #14 to '8'
Remapping chain ID 'b' in FlaB1_core_monox33_real_refine.pdb #14 to '9'
Remapping chain ID 'c' in FlaB1_core_monox33_real_refine.pdb #14 to '0'
Remapping chain ID 'd' in FlaB1_core_monox33_real_refine.pdb #14 to 'AA'
Remapping chain ID 'e' in FlaB1_core_monox33_real_refine.pdb #14 to 'AB'
Remapping chain ID 'f' in FlaB1_core_monox33_real_refine.pdb #14 to 'AC'
Remapping chain ID 'g' in FlaB1_core_monox33_real_refine.pdb #14 to 'AD'
Remapping chain ID 'h' in FlaB1_core_monox33_real_refine.pdb #14 to 'AE'
Remapping chain ID 'B' in FlaB1_core_monox33_real_refine.pdb #15 to 'AF'
Remapping chain ID 'C' in FlaB1_core_monox33_real_refine.pdb #15 to 'AG'
Remapping chain ID 'D' in FlaB1_core_monox33_real_refine.pdb #15 to 'AH'
Remapping chain ID 'E' in FlaB1_core_monox33_real_refine.pdb #15 to 'AI'
Remapping chain ID 'F' in FlaB1_core_monox33_real_refine.pdb #15 to 'AJ'
Remapping chain ID 'G' in FlaB1_core_monox33_real_refine.pdb #15 to 'AK'
Remapping chain ID 'H' in FlaB1_core_monox33_real_refine.pdb #15 to 'AL'
Remapping chain ID 'I' in FlaB1_core_monox33_real_refine.pdb #15 to 'AM'
Remapping chain ID 'J' in FlaB1_core_monox33_real_refine.pdb #15 to 'AN'
Remapping chain ID 'K' in FlaB1_core_monox33_real_refine.pdb #15 to 'AO'
Remapping chain ID 'L' in FlaB1_core_monox33_real_refine.pdb #15 to 'AP'
Remapping chain ID 'M' in FlaB1_core_monox33_real_refine.pdb #15 to 'AQ'
Remapping chain ID 'N' in FlaB1_core_monox33_real_refine.pdb #15 to 'AR'
Remapping chain ID 'O' in FlaB1_core_monox33_real_refine.pdb #15 to 'AS'
Remapping chain ID 'P' in FlaB1_core_monox33_real_refine.pdb #15 to 'AT'
Remapping chain ID 'Q' in FlaB1_core_monox33_real_refine.pdb #15 to 'AU'
Remapping chain ID 'R' in FlaB1_core_monox33_real_refine.pdb #15 to 'AV'
Remapping chain ID 'S' in FlaB1_core_monox33_real_refine.pdb #15 to 'AW'
Remapping chain ID 'T' in FlaB1_core_monox33_real_refine.pdb #15 to 'AX'
Remapping chain ID 'U' in FlaB1_core_monox33_real_refine.pdb #15 to 'AY'
Remapping chain ID 'V' in FlaB1_core_monox33_real_refine.pdb #15 to 'AZ'
Remapping chain ID 'W' in FlaB1_core_monox33_real_refine.pdb #15 to 'Aa'
Remapping chain ID 'X' in FlaB1_core_monox33_real_refine.pdb #15 to 'Ab'
Remapping chain ID 'Y' in FlaB1_core_monox33_real_refine.pdb #15 to 'Ac'
Remapping chain ID 'Z' in FlaB1_core_monox33_real_refine.pdb #15 to 'Ad'
Remapping chain ID 'a' in FlaB1_core_monox33_real_refine.pdb #15 to 'Ae'
Remapping chain ID 'b' in FlaB1_core_monox33_real_refine.pdb #15 to 'Af'
Remapping chain ID 'c' in FlaB1_core_monox33_real_refine.pdb #15 to 'Ag'
Remapping chain ID 'd' in FlaB1_core_monox33_real_refine.pdb #15 to 'Ah'
Remapping chain ID 'e' in FlaB1_core_monox33_real_refine.pdb #15 to 'Ai'
Remapping chain ID 'f' in FlaB1_core_monox33_real_refine.pdb #15 to 'Aj'
Remapping chain ID 'g' in FlaB1_core_monox33_real_refine.pdb #15 to 'Ak'
Remapping chain ID 'h' in FlaB1_core_monox33_real_refine.pdb #15 to 'Al'
> rename #5,14,15 id #60
> rename #16id #5
Missing or invalid "models" argument: only initial part "#16" of atom
specifier valid
> rename #16 id #5
> color #5 #fff6b6ff
> color #5 #f3ad5bff
> color #5 #fff6b6ff
> hide #!201 models
> show #!201 models
> hide #!60 models
> rename #60 FlaB1_core_monoxn_long.pdb
> rename #5 FlaB1_core_long
> rename #5 FlaB1_core_long.pdb
> hide #5 models
> show #5 models
Alignment identifier is 1
Alignment identifier is 2
Alignment identifier is 3
Alignment identifier is 4
Alignment identifier is 5
Alignment identifier is 6
Alignment identifier is 7
Alignment identifier is 8
Alignment identifier is 9
Alignment identifier is 10
Alignment identifier is 11
Alignment identifier is 12
Alignment identifier is 13
Alignment identifier is 14
Alignment identifier is 15
Alignment identifier is 16
> select add #5
216018 atoms, 217305 bonds, 28314 residues, 1 model selected
Alignment identifier is 1
> ui tool show "Volume Viewer"
> select subtract #5
Nothing selected
> select #5/B-z,1-9,0,AA-Al:127
594 atoms, 495 bonds, 99 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:126-127
1188 atoms, 1089 bonds, 198 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:126-127
1188 atoms, 1089 bonds, 198 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:126-127
1188 atoms, 1089 bonds, 198 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:126
594 atoms, 495 bonds, 99 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:126
594 atoms, 495 bonds, 99 residues, 1 model selected
> color sel magenta
> select add #5
216018 atoms, 217305 bonds, 28314 residues, 1 model selected
> select subtract #5
Nothing selected
> select add #201
47 models selected
> view matrix models #201,1,0,0,-0.038505,0,1,0,0.04598,0,0,1,0.0426
> select subtract #201
Nothing selected
> hide #!201.2 models
> show #!201.2 models
> select add #201.2
2 models selected
> select subtract #201.2
Nothing selected
> select add #201.3
2 models selected
> select subtract #201.3
Nothing selected
> select add #201.1
2 models selected
> select add #201.2
4 models selected
> select add #201.4
6 models selected
> select add #201.5
8 models selected
> select add #201
47 models selected
> select subtract #201
Nothing selected
> select add #201
47 models selected
> select subtract #201.3
45 models selected
> view matrix models #201,1,0,0,0.075038,0,1,0,-0.083601,0,0,1,-0.13601
> select add #201.3
47 models selected
> select subtract #201.3
45 models selected
> select add #201.3
47 models selected
> select subtract #201.4
45 models selected
> select add #201.4
47 models selected
> select subtract #201.3
45 models selected
> select add #201
47 models selected
> select subtract #201
Nothing selected
> hide #!201 models
> show #!201 models
> hide #!201.3 models
> select add #201
47 models selected
> select subtract #201.3
45 models selected
> show #!201.3 models
> view matrix models #201,1,0,0,-1.3798,0,1,0,2.0298,0,0,1,-1.8453
> view matrix models #201,1,0,0,-1.787,0,1,0,2.959,0,0,1,-1.8562
> view matrix models #201,1,0,0,-0.34812,0,1,0,2.3353,0,0,1,-2.5448
> view matrix models #201,1,0,0,-0.74601,0,1,0,2.6174,0,0,1,-1.8671
> view matrix models #201,1,0,0,-0.906,0,1,0,2.9028,0,0,1,-1.4726
> view matrix models #201,1,0,0,-0.74364,0,1,0,3.7058,0,0,1,-1.5069
> view matrix models #201,1,0,0,-0.97533,0,1,0,3.1195,0,0,1,-1.0379
> view matrix models #201,1,0,0,-0.90261,0,1,0,3.319,0,0,1,-1.3941
> view matrix models #201,1,0,0,-0.64684,0,1,0,3.4522,0,0,1,-1.489
> view matrix models #201,1,0,0,-0.73034,0,1,0,3.7648,0,0,1,-1.0827
> view matrix models #201,1,0,0,-0.48823,0,1,0,3.3355,0,0,1,-1.1554
> view matrix models #201,1,0,0,-0.5621,0,1,0,3.2808,0,0,1,-1.2906
> view matrix models #201,1,0,0,1.4702,0,1,0,-0.40641,0,0,1,-0.13132
> view matrix models #201,1,0,0,0.27103,0,1,0,-0.0054869,0,0,1,0.1358
> view matrix models #201,1,0,0,0.083533,0,1,0,-0.036138,0,0,1,-0.011917
> select subtract #201.4
43 models selected
> select add #201.4
45 models selected
> select add #201.3
47 models selected
> select subtract #201
Nothing selected
> select add #201.1
2 models selected
> view matrix models #201.1,1,0,0,-0.36071,0,1,0,2.5971,0,0,1,-1.6468
> select add #201
47 models selected
> select subtract #201
Nothing selected
> select add #201.1
2 models selected
> view matrix models #201.1,1,0,0,-3.9419,0,1,0,0.62331,0,0,1,50.72
> view matrix models #201.1,1,0,0,-1.4412,0,1,0,0.99037,0,0,1,48.939
> view matrix models #201.1,1,0,0,-0.91173,0,1,0,0.70618,0,0,1,51.798
> view matrix models #201.1,1,0,0,-0.32731,0,1,0,0.33108,0,0,1,51.439
> rename #201 #14
No name or id option specified for renaming
> rename #201 id #14
> fitmap #14.1 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9613, correlation about mean = 0.7073, overlap = 14.51
steps = 68, shift = 1.31, angle = 26.4 degrees
Position of S126_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.94690112 -0.30082636 -0.11349788 101.61308186
0.24980765 0.91056668 -0.32933941 35.24369840
0.20242136 0.28349922 0.93736534 -39.40193855
Axis 0.69453829 -0.35803554 0.62404096
Axis point 0.00000000 230.27436643 80.75608838
Rotation angle (degrees) 26.17946166
Shift along axis 33.36725640
> view matrix models
> #14.1,0.94285,-0.31995,-0.093077,102.63,0.27562,0.90582,-0.32176,29.926,0.18726,0.27772,0.94224,-36.968
> fitmap #14.1 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9612, correlation about mean = 0.7074, overlap = 14.51
steps = 48, shift = 1.66, angle = 0.0334 degrees
Position of S126_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.94682519 -0.30115886 -0.11324932 101.64252156
0.25010837 0.91033106 -0.32976228 35.32514249
0.20240521 0.28390263 0.93724673 -39.45485024
Axis 0.69478615 -0.35738135 0.62414003
Axis point 0.00000000 230.17224265 80.69942932
Rotation angle (degrees) 26.20738083
Shift along axis 33.36991707
> select subtract #14.1
Nothing selected
> select add #14.2
2 models selected
> select subtract #14.2
Nothing selected
> select add #14.3
2 models selected
> fitmap #14.3 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9971, correlation about mean = 0.9651, overlap = 17.59
steps = 64, shift = 0.318, angle = 3.05 degrees
Position of S126_glycan.mrc (#14.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99911429 -0.03400875 -0.02477970 12.98565660
0.03318958 0.99891231 -0.03275139 0.01935706
0.02586658 0.03189996 0.99915630 -12.88284070
Axis 0.60925566 -0.47727588 0.63325766
Axis point 15.74563206 386.00554243 0.00000000
Rotation angle (degrees) 3.04140774
Shift along axis -0.25581144
> select subtract #14.3
Nothing selected
> select add #14.1
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #14.1,0.95977,-0.19713,-0.19996,98.202,0.14176,0.95488,-0.26096,39.122,0.24238,0.22212,0.94441,-39.611
> view matrix models
> #14.1,0.93491,-0.26184,-0.23956,127.25,0.23036,0.96122,-0.15161,-10.221,0.26997,0.086556,0.95897,-21.761
> ui mousemode right "translate selected models"
> view matrix models
> #14.1,0.93491,-0.26184,-0.23956,127.56,0.23036,0.96122,-0.15161,-10.857,0.26997,0.086556,0.95897,-21.657
> view matrix models
> #14.1,0.93491,-0.26184,-0.23956,127.95,0.23036,0.96122,-0.15161,-10.932,0.26997,0.086556,0.95897,-22.262
> view matrix models
> #14.1,0.93491,-0.26184,-0.23956,127.76,0.23036,0.96122,-0.15161,-10.338,0.26997,0.086556,0.95897,-22.13
> view matrix models
> #14.1,0.93491,-0.26184,-0.23956,127.65,0.23036,0.96122,-0.15161,-10.548,0.26997,0.086556,0.95897,-21.857
> ui mousemode right "rotate selected models"
> view matrix models
> #14.1,0.91918,-0.28521,-0.27161,144.07,0.26421,0.95797,-0.11178,-27.754,0.29208,0.030978,0.95589,-14.978
> view matrix models
> #14.1,0.93644,-0.14241,-0.32062,122.13,0.14152,0.98959,-0.026196,-25.135,0.32101,-0.020844,0.94685,-9.0973
> view matrix models
> #14.1,0.95185,-0.16486,-0.25845,107.99,0.16708,0.98585,-0.013495,-33.657,0.25702,-0.030336,0.96593,3.8363
> view matrix models
> #14.1,0.88812,-0.38017,-0.25828,168.09,0.32937,0.91839,-0.21926,-9.4151,0.32056,0.10966,0.94086,-34.581
> view matrix models
> #14.1,0.87247,-0.3404,-0.35061,185.99,0.25781,0.93013,-0.26151,15.797,0.41513,0.13777,0.89927,-53.372
> view matrix models
> #14.1,0.86556,-0.29949,-0.40139,191.48,0.18403,0.93562,-0.30125,42.243,0.46577,0.18689,0.86495,-67.578
> fitmap #14.1 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9615, correlation about mean = 0.7096, overlap = 14.51
steps = 64, shift = 0.486, angle = 18.4 degrees
Position of S126_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.94833925 -0.29666600 -0.11243640 100.14190352
0.24605668 0.91148533 -0.32962192 36.03733250
0.20027174 0.28492768 0.93739396 -39.18329334
Axis 0.70034176 -0.35636273 0.61848769
Axis point 0.00000000 227.71510566 83.91862947
Rotation angle (degrees) 26.02413970
Shift along axis 33.05681085
> fitmap #14.1 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9616, correlation about mean = 0.7069, overlap = 14.47
steps = 60, shift = 0.0206, angle = 0.432 degrees
Position of S126_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.94670693 -0.30271235 -0.11005096 101.21057737
0.25171503 0.90849273 -0.33358731 36.22441591
0.20096150 0.28810794 0.93627362 -39.73031344
Axis 0.69918596 -0.34977837 0.62353355
Axis point 0.00000000 227.93321963 81.00411546
Rotation angle (degrees) 26.39679338
Shift along axis 33.32131438
> view matrix models
> #14.1,0.91945,-0.35742,-0.16389,132.5,0.33651,0.93088,-0.14222,-32.07,0.20339,0.075613,0.97617,-7.4329
> ui mousemode right "translate selected models"
> view matrix models
> #14.1,0.91945,-0.35742,-0.16389,132.87,0.33651,0.93088,-0.14222,-32.983,0.20339,0.075613,0.97617,-7.5805
> view matrix models
> #14.1,0.91945,-0.35742,-0.16389,133.23,0.33651,0.93088,-0.14222,-32.882,0.20339,0.075613,0.97617,-7.7816
> view matrix models
> #14.1,0.91945,-0.35742,-0.16389,133.16,0.33651,0.93088,-0.14222,-32.516,0.20339,0.075613,0.97617,-7.631
> select add #14.3
4 models selected
> select subtract #14.1
2 models selected
> view matrix models
> #14.3,0.99821,-0.058706,-0.011056,14.412,0.058448,0.99804,-0.022383,-5.5155,0.012348,0.021697,0.99969,-9.2645
> view matrix models
> #14.3,0.99821,-0.058706,-0.011056,14.603,0.058448,0.99804,-0.022383,-5.6792,0.012348,0.021697,0.99969,-8.9479
> view matrix models
> #14.3,0.99821,-0.058706,-0.011056,14.682,0.058448,0.99804,-0.022383,-5.5966,0.012348,0.021697,0.99969,-8.9804
> select add #14.1
4 models selected
> select subtract #14.3
2 models selected
> view matrix models
> #14.1,0.91945,-0.35742,-0.16389,132.31,0.33651,0.93088,-0.14222,-31.593,0.20339,0.075613,0.97617,-10.287
> view matrix models
> #14.1,0.91945,-0.35742,-0.16389,120.05,0.33651,0.93088,-0.14222,-31.566,0.20339,0.075613,0.97617,-60.718
> view matrix models
> #14.1,0.91945,-0.35742,-0.16389,124.2,0.33651,0.93088,-0.14222,-24.253,0.20339,0.075613,0.97617,-61.91
> view matrix models
> #14.1,0.91945,-0.35742,-0.16389,132.14,0.33651,0.93088,-0.14222,-31.112,0.20339,0.075613,0.97617,-60.725
> fitmap #14.1 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9971, correlation about mean = 0.9655, overlap = 17.6
steps = 52, shift = 1.02, angle = 20.2 degrees
Position of S126_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99892484 -0.03702774 -0.02789456 14.42396248
0.03583713 0.99847311 -0.04203730 1.72456524
0.02940851 0.04099244 0.99872656 -15.54835399
Axis 0.66719358 -0.46046442 0.58551281
Axis point 0.00000000 376.13701953 24.35810914
Rotation angle (degrees) 3.56742696
Shift along axis -0.27428619
> fitmap #14.1 inMap #14.3
Fit map S126_glycan.mrc in map S126_glycan.mrc using 24 points
correlation = 1, correlation about mean = 0.9995, overlap = 19.65
steps = 68, shift = 0.236, angle = 0.855 degrees
Position of S126_glycan.mrc (#14.1) relative to S126_glycan.mrc (#14.3)
coordinates:
Matrix rotation and translation
0.99999644 0.00260786 -0.00055821 -0.41160445
-0.00260536 0.99998678 0.00443350 -0.44277778
0.00056977 -0.00443203 0.99999002 0.79047272
Axis -0.85687224 -0.10902173 -0.50386926
Axis point 0.00000000 178.43226517 100.33752474
Rotation angle (degrees) 0.29640309
Shift along axis 0.00266992
> fitmap #14.1 inMap #14.3
Fit map S126_glycan.mrc in map S126_glycan.mrc using 24 points
correlation = 0.9999, correlation about mean = 0.9994, overlap = 19.62
steps = 48, shift = 0.00265, angle = 0.0546 degrees
Position of S126_glycan.mrc (#14.1) relative to S126_glycan.mrc (#14.3)
coordinates:
Matrix rotation and translation
0.99999728 0.00207345 -0.00106927 -0.17794582
-0.00206934 0.99999052 0.00383158 -0.43062153
0.00107720 -0.00382935 0.99999209 0.54233642
Axis -0.85406675 -0.23929613 -0.46185208
Axis point 0.00000000 141.94187477 112.45500382
Rotation angle (degrees) 0.25697076
Shift along axis 0.00454447
> select subtract #14.1
Nothing selected
> select add #14.1
2 models selected
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,6.352,0.056358,0.99824,-0.018621,-10.567,0.01338,0.017894,0.99975,44.027
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,20.69,0.056358,0.99824,-0.018621,-15.333,0.01338,0.017894,0.99975,45.72
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,17.856,0.056358,0.99824,-0.018621,-8.4513,0.01338,0.017894,0.99975,46.729
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,16.772,0.056358,0.99824,-0.018621,-9.389,0.01338,0.017894,0.99975,45.76
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,16.514,0.056358,0.99824,-0.018621,-8.4794,0.01338,0.017894,0.99975,45.754
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,15.795,0.056358,0.99824,-0.018621,-9.0405,0.01338,0.017894,0.99975,45.842
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,15.626,0.056358,0.99824,-0.018621,-8.5229,0.01338,0.017894,0.99975,45.352
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,15.704,0.056358,0.99824,-0.018621,-8.5039,0.01338,0.017894,0.99975,45.338
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,15.675,0.056358,0.99824,-0.018621,-8.4573,0.01338,0.017894,0.99975,45.393
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,15.727,0.056358,0.99824,-0.018621,-8.4415,0.01338,0.017894,0.99975,45.389
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,15.764,0.056358,0.99824,-0.018621,-8.5413,0.01338,0.017894,0.99975,45.393
> view matrix models
> #14.1,0.99832,-0.056593,-0.012348,15.852,0.056358,0.99824,-0.018621,-8.5146,0.01338,0.017894,0.99975,45.344
> select subtract #14.1
Nothing selected
> select add #14.2
2 models selected
> view matrix models #14.2,1,0,0,8.4481,0,1,0,7.7924,0,0,1,-54.703
> view matrix models #14.2,1,0,0,-2.4535,0,1,0,1.185,0,0,1,-50.103
> view matrix models #14.2,1,0,0,-3.6434,0,1,0,3.3839,0,0,1,-56.616
> view matrix models #14.2,1,0,0,-2.8327,0,1,0,2.8553,0,0,1,-56.474
> view matrix models #14.2,1,0,0,-2.6039,0,1,0,2.8692,0,0,1,-56.258
> select subtract #14.2
Nothing selected
> select add #14.3
2 models selected
> select subtract #14.3
Nothing selected
> select add #14.4
2 models selected
> view matrix models #14.4,1,0,0,23.574,0,1,0,4.1302,0,0,1,-98.584
> view matrix models #14.4,1,0,0,-4.4442,0,1,0,3.9456,0,0,1,-103.74
> view matrix models #14.4,1,0,0,-5.9057,0,1,0,4.3434,0,0,1,-107.84
> view matrix models #14.4,1,0,0,-3.0777,0,1,0,4.3621,0,0,1,-107.16
> view matrix models #14.4,1,0,0,-3.0356,0,1,0,4.5279,0,0,1,-108.93
> view matrix models #14.4,1,0,0,-3.0605,0,1,0,4.8002,0,0,1,-109.59
> view matrix models #14.4,1,0,0,-2.8319,0,1,0,4.5662,0,0,1,-109.39
> select subtract #14.4
Nothing selected
> select add #14.5
2 models selected
> view matrix models #14.5,1,0,0,-26.515,0,1,0,23.581,0,0,1,24.9
> view matrix models #14.5,1,0,0,-25.63,0,1,0,34.221,0,0,1,23.858
> view matrix models #14.5,1,0,0,-23.014,0,1,0,26.918,0,0,1,24.781
> view matrix models #14.5,1,0,0,-25.321,0,1,0,20.03,0,0,1,78.875
> view matrix models #14.5,1,0,0,-20.48,0,1,0,26.458,0,0,1,77.274
> view matrix models #14.5,1,0,0,-19.288,0,1,0,25.414,0,0,1,80.643
> view matrix models #14.5,1,0,0,-19.31,0,1,0,25.063,0,0,1,80.8
> ui mousemode right "rotate selected models"
> view matrix models
> #14.5,0.98572,-0.16762,-0.015981,22.766,0.16784,0.98572,0.01394,-16.22,0.013416,-0.016423,0.99978,80.99
> view matrix models
> #14.5,0.97393,-0.22664,-0.010229,36.477,0.22681,0.97371,0.020977,-29.795,0.0052059,-0.02275,0.99973,84.312
> view matrix models
> #14.5,0.97131,-0.23768,0.0079506,35.004,0.23712,0.97048,0.04405,-37.217,-0.018186,-0.040901,0.999,93.946
> view matrix models
> #14.5,0.94705,-0.32077,0.01394,56.68,0.31954,0.94587,0.056718,-55.254,-0.031379,-0.049261,0.99829,99.062
> select subtract #14.5
Nothing selected
> select add #14.6
2 models selected
> select add #14.7
4 models selected
> select add #14.8
6 models selected
> view matrix models
> #14.6,0.28415,-0.43657,-0.85362,471.3,-0.072482,0.87799,-0.47316,157.4,0.95604,0.19632,0.21784,-84.255,#14.7,0.28415,-0.43657,-0.85362,471.3,-0.072482,0.87799,-0.47316,157.4,0.95604,0.19632,0.21784,-84.255,#14.8,0.28415,-0.43657,-0.85362,471.3,-0.072482,0.87799,-0.47316,157.4,0.95604,0.19632,0.21784,-84.255
> ui mousemode right "translate selected models"
> view matrix models
> #14.6,0.28415,-0.43657,-0.85362,423.77,-0.072482,0.87799,-0.47316,155.14,0.95604,0.19632,0.21784,-23.257,#14.7,0.28415,-0.43657,-0.85362,423.77,-0.072482,0.87799,-0.47316,155.14,0.95604,0.19632,0.21784,-23.257,#14.8,0.28415,-0.43657,-0.85362,423.77,-0.072482,0.87799,-0.47316,155.14,0.95604,0.19632,0.21784,-23.257
> view matrix models
> #14.6,0.28415,-0.43657,-0.85362,458,-0.072482,0.87799,-0.47316,190.98,0.95604,0.19632,0.21784,-18.932,#14.7,0.28415,-0.43657,-0.85362,458,-0.072482,0.87799,-0.47316,190.98,0.95604,0.19632,0.21784,-18.932,#14.8,0.28415,-0.43657,-0.85362,458,-0.072482,0.87799,-0.47316,190.98,0.95604,0.19632,0.21784,-18.932
> view matrix models
> #14.6,0.28415,-0.43657,-0.85362,457.81,-0.072482,0.87799,-0.47316,185.46,0.95604,0.19632,0.21784,-2.2243,#14.7,0.28415,-0.43657,-0.85362,457.81,-0.072482,0.87799,-0.47316,185.46,0.95604,0.19632,0.21784,-2.2243,#14.8,0.28415,-0.43657,-0.85362,457.81,-0.072482,0.87799,-0.47316,185.46,0.95604,0.19632,0.21784,-2.2243
> view matrix models
> #14.6,0.28415,-0.43657,-0.85362,454.63,-0.072482,0.87799,-0.47316,183.46,0.95604,0.19632,0.21784,-0.46278,#14.7,0.28415,-0.43657,-0.85362,454.63,-0.072482,0.87799,-0.47316,183.46,0.95604,0.19632,0.21784,-0.46278,#14.8,0.28415,-0.43657,-0.85362,454.63,-0.072482,0.87799,-0.47316,183.46,0.95604,0.19632,0.21784,-0.46278
> view matrix models
> #14.6,0.28415,-0.43657,-0.85362,453.9,-0.072482,0.87799,-0.47316,183.43,0.95604,0.19632,0.21784,-3.1851,#14.7,0.28415,-0.43657,-0.85362,453.9,-0.072482,0.87799,-0.47316,183.43,0.95604,0.19632,0.21784,-3.1851,#14.8,0.28415,-0.43657,-0.85362,453.9,-0.072482,0.87799,-0.47316,183.43,0.95604,0.19632,0.21784,-3.1851
> select add #14.5
8 models selected
> select subtract #14.5
6 models selected
> fitmap #14.6 inMap #14.5
Fit map S126_glycan.mrc in map S126_glycan.mrc using 24 points
correlation = 1, correlation about mean = 0.9998, overlap = 19.67
steps = 76, shift = 1.79, angle = 79.7 degrees
Position of S126_glycan.mrc (#14.6) relative to S126_glycan.mrc (#14.5)
coordinates:
Matrix rotation and translation
0.99999798 -0.00149984 -0.00135573 0.64550640
0.00149588 0.99999487 -0.00285553 0.33131867
0.00136002 0.00285345 0.99999501 -0.92930510
Axis 0.81605109 -0.38819427 0.42821236
Axis point 0.00000000 325.90880215 115.46352988
Rotation angle (degrees) 0.20041706
Shift along axis 0.00021026
> fitmap #14.7 inMap #14.5
Fit map S126_glycan.mrc in map S126_glycan.mrc using 24 points
correlation = 1, correlation about mean = 0.9998, overlap = 19.67
steps = 76, shift = 1.79, angle = 79.7 degrees
Position of S126_glycan.mrc (#14.7) relative to S126_glycan.mrc (#14.5)
coordinates:
Matrix rotation and translation
0.99999798 -0.00149984 -0.00135573 0.64550640
0.00149588 0.99999487 -0.00285553 0.33131867
0.00136002 0.00285345 0.99999501 -0.92930510
Axis 0.81605109 -0.38819427 0.42821236
Axis point 0.00000000 325.90880215 115.46352988
Rotation angle (degrees) 0.20041706
Shift along axis 0.00021026
> fitmap #14.8 inMap #14.5
Fit map S126_glycan.mrc in map S126_glycan.mrc using 24 points
correlation = 1, correlation about mean = 0.9998, overlap = 19.67
steps = 76, shift = 1.79, angle = 79.7 degrees
Position of S126_glycan.mrc (#14.8) relative to S126_glycan.mrc (#14.5)
coordinates:
Matrix rotation and translation
0.99999798 -0.00149984 -0.00135573 0.64550640
0.00149588 0.99999487 -0.00285553 0.33131867
0.00136002 0.00285345 0.99999501 -0.92930510
Axis 0.81605109 -0.38819427 0.42821236
Axis point 0.00000000 325.90880215 115.46352988
Rotation angle (degrees) 0.20041706
Shift along axis 0.00021026
> select subtract #14.7
4 models selected
> select subtract #14.8
2 models selected
> view matrix models
> #14.6,0.94659,-0.32215,0.013572,59.91,0.32103,0.94555,0.053584,-50.087,-0.030095,-0.046365,0.99847,43.12
> view matrix models
> #14.6,0.94659,-0.32215,0.013572,59.076,0.32103,0.94555,0.053584,-54.711,-0.030095,-0.046365,0.99847,41.647
> view matrix models
> #14.6,0.94659,-0.32215,0.013572,57.697,0.32103,0.94555,0.053584,-54.702,-0.030095,-0.046365,0.99847,43.274
> select add #14.5
4 models selected
> select subtract #14.6
2 models selected
> view matrix models
> #14.5,0.94705,-0.32077,0.01394,58.3,0.31954,0.94587,0.056718,-56.1,-0.031379,-0.049261,0.99829,96.019
> view matrix models
> #14.5,0.94705,-0.32077,0.01394,56.586,0.31954,0.94587,0.056718,-58.033,-0.031379,-0.049261,0.99829,97.673
> view matrix models
> #14.5,0.94705,-0.32077,0.01394,57.191,0.31954,0.94587,0.056718,-58.609,-0.031379,-0.049261,0.99829,96.303
> select subtract #14.5
Nothing selected
> select add #14.6
2 models selected
> select subtract #14.6
Nothing selected
> select add #14.7
2 models selected
> view matrix models
> #14.7,0.94659,-0.32215,0.013572,77.269,0.32103,0.94555,0.053584,-24.12,-0.030095,-0.046365,0.99847,12.715
> view matrix models
> #14.7,0.94659,-0.32215,0.013572,73.436,0.32103,0.94555,0.053584,-55.75,-0.030095,-0.046365,0.99847,-15.668
> view matrix models
> #14.7,0.94659,-0.32215,0.013572,61.963,0.32103,0.94555,0.053584,-48.066,-0.030095,-0.046365,0.99847,-15.053
> view matrix models
> #14.7,0.94659,-0.32215,0.013572,61.228,0.32103,0.94555,0.053584,-49.694,-0.030095,-0.046365,0.99847,-8.1997
> view matrix models
> #14.7,0.94659,-0.32215,0.013572,57.491,0.32103,0.94555,0.053584,-52.426,-0.030095,-0.046365,0.99847,-13.835
> view matrix models
> #14.7,0.94659,-0.32215,0.013572,56.302,0.32103,0.94555,0.053584,-54.159,-0.030095,-0.046365,0.99847,-11.32
> view matrix models
> #14.7,0.94659,-0.32215,0.013572,57.085,0.32103,0.94555,0.053584,-53.361,-0.030095,-0.046365,0.99847,-9.071
> view matrix models
> #14.7,0.94659,-0.32215,0.013572,57.175,0.32103,0.94555,0.053584,-53.461,-0.030095,-0.046365,0.99847,-9.1908
> select subtract #14.7
Nothing selected
> select add #14.8
2 models selected
> view matrix models
> #14.8,0.94659,-0.32215,0.013572,23.946,0.32103,0.94555,0.053584,-89.429,-0.030095,-0.046365,0.99847,-20.167
> view matrix models
> #14.8,0.94659,-0.32215,0.013572,33.753,0.32103,0.94555,0.053584,-35.158,-0.030095,-0.046365,0.99847,-19.92
> view matrix models
> #14.8,0.94659,-0.32215,0.013572,51.825,0.32103,0.94555,0.053584,-54.007,-0.030095,-0.046365,0.99847,-63.53
> view matrix models
> #14.8,0.94659,-0.32215,0.013572,54.812,0.32103,0.94555,0.053584,-55.518,-0.030095,-0.046365,0.99847,-62.421
> view matrix models
> #14.8,0.94659,-0.32215,0.013572,55.234,0.32103,0.94555,0.053584,-54.177,-0.030095,-0.046365,0.99847,-64.084
> view matrix models
> #14.8,0.94659,-0.32215,0.013572,55.366,0.32103,0.94555,0.053584,-54.019,-0.030095,-0.046365,0.99847,-62.428
> view matrix models
> #14.8,0.94659,-0.32215,0.013572,55.385,0.32103,0.94555,0.053584,-54.038,-0.030095,-0.046365,0.99847,-62.482
> select subtract #14.8
Nothing selected
> select add #14.9
2 models selected
> view matrix models #14.9,1,0,0,-107.55,0,1,0,43.309,0,0,1,-138.82
> view matrix models #14.9,1,0,0,-100.85,0,1,0,57.575,0,0,1,-185.4
> view matrix models #14.9,1,0,0,-19.946,0,1,0,32.714,0,0,1,-137.04
> view matrix models #14.9,1,0,0,-3.8439,0,1,0,46.303,0,0,1,-93.136
> view matrix models #14.9,1,0,0,-16.088,0,1,0,28.604,0,0,1,-75.685
> view matrix models #14.9,1,0,0,-19.631,0,1,0,25.651,0,0,1,-81.131
> fitmap #14.9 inMap #14.8
Fit map S126_glycan.mrc in map S126_glycan.mrc using 24 points
correlation = 1, correlation about mean = 0.9999, overlap = 19.7
steps = 96, shift = 2.12, angle = 19.1 degrees
Position of S126_glycan.mrc (#14.9) relative to S126_glycan.mrc (#14.8)
coordinates:
Matrix rotation and translation
0.99999870 -0.00104013 -0.00121482 0.51449870
0.00103820 0.99999801 -0.00166543 0.15219113
0.00121654 0.00166421 0.99999787 -0.64748974
Axis 0.72115570 -0.52660193 0.45013871
Axis point 0.00000000 389.03419250 90.75108908
Rotation angle (degrees) 0.13226987
Shift along axis -0.00057067
> view matrix models
> #14.9,0.94627,-0.32311,0.012959,48.122,0.32208,0.94531,0.051619,-57.464,-0.028929,-0.044672,0.99858,-116.7
> view matrix models
> #14.9,0.94627,-0.32311,0.012959,48.647,0.32208,0.94531,0.051619,-54.042,-0.028929,-0.044672,0.99858,-122.86
> view matrix models
> #14.9,0.94627,-0.32311,0.012959,53.931,0.32208,0.94531,0.051619,-54.479,-0.028929,-0.044672,0.99858,-117.39
> view matrix models
> #14.9,0.94627,-0.32311,0.012959,53.996,0.32208,0.94531,0.051619,-54.642,-0.028929,-0.044672,0.99858,-117.59
> select subtract #14.9
Nothing selected
> select add #14.10
2 models selected
> select add #14.11
4 models selected
> select add #14.12
6 models selected
> select add #14.13
8 models selected
> select add #14.14
10 models selected
> view matrix models
> #14.10,1,0,0,-141.54,0,1,0,-11.522,0,0,1,7.221,#14.11,1,0,0,-141.54,0,1,0,-11.522,0,0,1,7.221,#14.12,1,0,0,-141.54,0,1,0,-11.522,0,0,1,7.221,#14.13,1,0,0,-141.54,0,1,0,-11.522,0,0,1,7.221,#14.14,1,0,0,-141.54,0,1,0,-11.522,0,0,1,7.221
> view matrix models
> #14.10,1,0,0,-136.14,0,1,0,48.899,0,0,1,-66.308,#14.11,1,0,0,-136.14,0,1,0,48.899,0,0,1,-66.308,#14.12,1,0,0,-136.14,0,1,0,48.899,0,0,1,-66.308,#14.13,1,0,0,-136.14,0,1,0,48.899,0,0,1,-66.308,#14.14,1,0,0,-136.14,0,1,0,48.899,0,0,1,-66.308
> view matrix models
> #14.10,1,0,0,-46.226,0,1,0,75.942,0,0,1,-2.2175,#14.11,1,0,0,-46.226,0,1,0,75.942,0,0,1,-2.2175,#14.12,1,0,0,-46.226,0,1,0,75.942,0,0,1,-2.2175,#14.13,1,0,0,-46.226,0,1,0,75.942,0,0,1,-2.2175,#14.14,1,0,0,-46.226,0,1,0,75.942,0,0,1,-2.2175
> view matrix models
> #14.10,1,0,0,-46.636,0,1,0,43.079,0,0,1,8.5588,#14.11,1,0,0,-46.636,0,1,0,43.079,0,0,1,8.5588,#14.12,1,0,0,-46.636,0,1,0,43.079,0,0,1,8.5588,#14.13,1,0,0,-46.636,0,1,0,43.079,0,0,1,8.5588,#14.14,1,0,0,-46.636,0,1,0,43.079,0,0,1,8.5588
> view matrix models
> #14.10,1,0,0,-47.447,0,1,0,39.625,0,0,1,3.1947,#14.11,1,0,0,-47.447,0,1,0,39.625,0,0,1,3.1947,#14.12,1,0,0,-47.447,0,1,0,39.625,0,0,1,3.1947,#14.13,1,0,0,-47.447,0,1,0,39.625,0,0,1,3.1947,#14.14,1,0,0,-47.447,0,1,0,39.625,0,0,1,3.1947
> fitmap #14.10 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9584, correlation about mean = 0.5302, overlap = 11.81
steps = 76, shift = 0.58, angle = 47.4 degrees
Position of S126_glycan.mrc (#14.10) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.66113036 0.74732281 0.06644741 -134.85703824
-0.74213500 0.66439863 -0.08837473 310.50808692
-0.11019202 0.00911427 0.99386853 30.61683993
Axis 0.06486034 0.11751986 -0.99095016
Axis point 279.91168840 307.15273815 0.00000000
Rotation angle (degrees) 48.72309748
Shift along axis -2.59577023
> fitmap #14.11 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9584, correlation about mean = 0.5302, overlap = 11.81
steps = 76, shift = 0.58, angle = 47.4 degrees
Position of S126_glycan.mrc (#14.11) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.66113036 0.74732281 0.06644741 -134.85703824
-0.74213500 0.66439863 -0.08837473 310.50808692
-0.11019202 0.00911427 0.99386853 30.61683993
Axis 0.06486034 0.11751986 -0.99095016
Axis point 279.91168840 307.15273815 0.00000000
Rotation angle (degrees) 48.72309748
Shift along axis -2.59577023
> fitmap #14.12 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9584, correlation about mean = 0.5302, overlap = 11.81
steps = 76, shift = 0.58, angle = 47.4 degrees
Position of S126_glycan.mrc (#14.12) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.66113036 0.74732281 0.06644741 -134.85703824
-0.74213500 0.66439863 -0.08837473 310.50808692
-0.11019202 0.00911427 0.99386853 30.61683993
Axis 0.06486034 0.11751986 -0.99095016
Axis point 279.91168840 307.15273815 0.00000000
Rotation angle (degrees) 48.72309748
Shift along axis -2.59577023
> fitmap #14.13 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9584, correlation about mean = 0.5302, overlap = 11.81
steps = 76, shift = 0.58, angle = 47.4 degrees
Position of S126_glycan.mrc (#14.13) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.66113036 0.74732281 0.06644741 -134.85703824
-0.74213500 0.66439863 -0.08837473 310.50808692
-0.11019202 0.00911427 0.99386853 30.61683993
Axis 0.06486034 0.11751986 -0.99095016
Axis point 279.91168840 307.15273815 0.00000000
Rotation angle (degrees) 48.72309748
Shift along axis -2.59577023
> fitmap #14.14 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9584, correlation about mean = 0.5302, overlap = 11.81
steps = 76, shift = 0.58, angle = 47.4 degrees
Position of S126_glycan.mrc (#14.14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.66113036 0.74732281 0.06644741 -134.85703824
-0.74213500 0.66439863 -0.08837473 310.50808692
-0.11019202 0.00911427 0.99386853 30.61683993
Axis 0.06486034 0.11751986 -0.99095016
Axis point 279.91168840 307.15273815 0.00000000
Rotation angle (degrees) 48.72309748
Shift along axis -2.59577023
> select subtract #14.11
8 models selected
> select subtract #14.12
6 models selected
> select subtract #14.13
4 models selected
> select subtract #14.14
2 models selected
> select subtract #14.10
Nothing selected
> select add #14.11
2 models selected
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-144.34,-0.72653,0.68294,-0.075762,290.19,-0.11098,-0.0078125,0.99379,-19.621
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-144.26,-0.72653,0.68294,-0.075762,294.04,-0.11098,-0.0078125,0.99379,-25.648
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-143.49,-0.72653,0.68294,-0.075762,294.48,-0.11098,-0.0078125,0.99379,-20.32
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-143.04,-0.72653,0.68294,-0.075762,297.97,-0.11098,-0.0078125,0.99379,-21.348
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-141.57,-0.72653,0.68294,-0.075762,298.12,-0.11098,-0.0078125,0.99379,-20.355
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-141.03,-0.72653,0.68294,-0.075762,298.5,-0.11098,-0.0078125,0.99379,-19.196
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-141.21,-0.72653,0.68294,-0.075762,300,-0.11098,-0.0078125,0.99379,-21.807
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-141.63,-0.72653,0.68294,-0.075762,300.26,-0.11098,-0.0078125,0.99379,-20.376
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-141.9,-0.72653,0.68294,-0.075762,300.73,-0.11098,-0.0078125,0.99379,-20.806
> view matrix models
> #14.11,0.67811,0.73043,0.081465,-142.11,-0.72653,0.68294,-0.075762,300.86,-0.11098,-0.0078125,0.99379,-20.663
> select subtract #14.11
Nothing selected
> select add #14.12
2 models selected
> select add #14.13
4 models selected
> select add #14.14
6 models selected
> select add #14.15
8 models selected
> select subtract #14.15
6 models selected
> view matrix models
> #14.12,0.67811,0.73043,0.081465,-143.14,-0.72653,0.68294,-0.075762,310.71,-0.11098,-0.0078125,0.99379,-72.038,#14.13,0.67811,0.73043,0.081465,-143.14,-0.72653,0.68294,-0.075762,310.71,-0.11098,-0.0078125,0.99379,-72.038,#14.14,0.67811,0.73043,0.081465,-143.14,-0.72653,0.68294,-0.075762,310.71,-0.11098,-0.0078125,0.99379,-72.038
> view matrix models
> #14.12,0.67811,0.73043,0.081465,-140.12,-0.72653,0.68294,-0.075762,300.64,-0.11098,-0.0078125,0.99379,-74.056,#14.13,0.67811,0.73043,0.081465,-140.12,-0.72653,0.68294,-0.075762,300.64,-0.11098,-0.0078125,0.99379,-74.056,#14.14,0.67811,0.73043,0.081465,-140.12,-0.72653,0.68294,-0.075762,300.64,-0.11098,-0.0078125,0.99379,-74.056
> view matrix models
> #14.12,0.67811,0.73043,0.081465,-143.67,-0.72653,0.68294,-0.075762,301.47,-0.11098,-0.0078125,0.99379,-73.699,#14.13,0.67811,0.73043,0.081465,-143.67,-0.72653,0.68294,-0.075762,301.47,-0.11098,-0.0078125,0.99379,-73.699,#14.14,0.67811,0.73043,0.081465,-143.67,-0.72653,0.68294,-0.075762,301.47,-0.11098,-0.0078125,0.99379,-73.699
> view matrix models
> #14.12,0.67811,0.73043,0.081465,-143.93,-0.72653,0.68294,-0.075762,301.14,-0.11098,-0.0078125,0.99379,-73.834,#14.13,0.67811,0.73043,0.081465,-143.93,-0.72653,0.68294,-0.075762,301.14,-0.11098,-0.0078125,0.99379,-73.834,#14.14,0.67811,0.73043,0.081465,-143.93,-0.72653,0.68294,-0.075762,301.14,-0.11098,-0.0078125,0.99379,-73.834
> view matrix models
> #14.12,0.67811,0.73043,0.081465,-144.04,-0.72653,0.68294,-0.075762,300.92,-0.11098,-0.0078125,0.99379,-73.889,#14.13,0.67811,0.73043,0.081465,-144.04,-0.72653,0.68294,-0.075762,300.92,-0.11098,-0.0078125,0.99379,-73.889,#14.14,0.67811,0.73043,0.081465,-144.04,-0.72653,0.68294,-0.075762,300.92,-0.11098,-0.0078125,0.99379,-73.889
> select subtract #14.12
4 models selected
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-144.6,-0.72653,0.68294,-0.075762,306.45,-0.11098,-0.0078125,0.99379,-126.16,#14.14,0.67811,0.73043,0.081465,-144.6,-0.72653,0.68294,-0.075762,306.45,-0.11098,-0.0078125,0.99379,-126.16
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-147.43,-0.72653,0.68294,-0.075762,300.17,-0.11098,-0.0078125,0.99379,-130.84,#14.14,0.67811,0.73043,0.081465,-147.43,-0.72653,0.68294,-0.075762,300.17,-0.11098,-0.0078125,0.99379,-130.84
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-146.29,-0.72653,0.68294,-0.075762,300.37,-0.11098,-0.0078125,0.99379,-127.68,#14.14,0.67811,0.73043,0.081465,-146.29,-0.72653,0.68294,-0.075762,300.37,-0.11098,-0.0078125,0.99379,-127.68
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-147.17,-0.72653,0.68294,-0.075762,299,-0.11098,-0.0078125,0.99379,-127.69,#14.14,0.67811,0.73043,0.081465,-147.17,-0.72653,0.68294,-0.075762,299,-0.11098,-0.0078125,0.99379,-127.69
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-146.85,-0.72653,0.68294,-0.075762,299.43,-0.11098,-0.0078125,0.99379,-127.56,#14.14,0.67811,0.73043,0.081465,-146.85,-0.72653,0.68294,-0.075762,299.43,-0.11098,-0.0078125,0.99379,-127.56
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-147.06,-0.72653,0.68294,-0.075762,299.04,-0.11098,-0.0078125,0.99379,-126.47,#14.14,0.67811,0.73043,0.081465,-147.06,-0.72653,0.68294,-0.075762,299.04,-0.11098,-0.0078125,0.99379,-126.47
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-146.74,-0.72653,0.68294,-0.075762,299.28,-0.11098,-0.0078125,0.99379,-126.4,#14.14,0.67811,0.73043,0.081465,-146.74,-0.72653,0.68294,-0.075762,299.28,-0.11098,-0.0078125,0.99379,-126.4
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-146.86,-0.72653,0.68294,-0.075762,299.02,-0.11098,-0.0078125,0.99379,-127.27,#14.14,0.67811,0.73043,0.081465,-146.86,-0.72653,0.68294,-0.075762,299.02,-0.11098,-0.0078125,0.99379,-127.27
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-146.96,-0.72653,0.68294,-0.075762,298.83,-0.11098,-0.0078125,0.99379,-126.59,#14.14,0.67811,0.73043,0.081465,-146.96,-0.72653,0.68294,-0.075762,298.83,-0.11098,-0.0078125,0.99379,-126.59
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-147.08,-0.72653,0.68294,-0.075762,298.47,-0.11098,-0.0078125,0.99379,-126.24,#14.14,0.67811,0.73043,0.081465,-147.08,-0.72653,0.68294,-0.075762,298.47,-0.11098,-0.0078125,0.99379,-126.24
> view matrix models
> #14.13,0.67811,0.73043,0.081465,-146.88,-0.72653,0.68294,-0.075762,298.21,-0.11098,-0.0078125,0.99379,-126.55,#14.14,0.67811,0.73043,0.081465,-146.88,-0.72653,0.68294,-0.075762,298.21,-0.11098,-0.0078125,0.99379,-126.55
> select subtract #14.13
2 models selected
> view matrix models
> #14.14,0.67811,0.73043,0.081465,-142.51,-0.72653,0.68294,-0.075762,293.01,-0.11098,-0.0078125,0.99379,87.494
> view matrix models
> #14.14,0.67811,0.73043,0.081465,-142.22,-0.72653,0.68294,-0.075762,298.63,-0.11098,-0.0078125,0.99379,83.763
> view matrix models
> #14.14,0.67811,0.73043,0.081465,-138.53,-0.72653,0.68294,-0.075762,296.92,-0.11098,-0.0078125,0.99379,87.598
> view matrix models
> #14.14,0.67811,0.73043,0.081465,-139.75,-0.72653,0.68294,-0.075762,298.12,-0.11098,-0.0078125,0.99379,88.366
> ui mousemode right "rotate selected models"
> view matrix models
> #14.14,0.66934,0.74039,0.061744,-134.91,-0.73578,0.6721,-0.083113,304.4,-0.10303,0.010201,0.99463,82.498
> view matrix models
> #14.14,0.40642,0.8757,0.26071,-147.06,-0.86593,0.4602,-0.19588,407.28,-0.29151,-0.14615,0.94534,172.72
> ui mousemode right "translate selected models"
> view matrix models
> #14.14,0.40642,0.8757,0.26071,-145.56,-0.86593,0.4602,-0.19588,409.62,-0.29151,-0.14615,0.94534,171.06
> view matrix models
> #14.14,0.40642,0.8757,0.26071,-146.75,-0.86593,0.4602,-0.19588,409.63,-0.29151,-0.14615,0.94534,170.92
> view matrix models
> #14.14,0.40642,0.8757,0.26071,-146.71,-0.86593,0.4602,-0.19588,409.68,-0.29151,-0.14615,0.94534,170.5
> select subtract #14.14
Nothing selected
> select add #14.14
2 models selected
> select subtract #14.14
Nothing selected
> select add #14.15
2 models selected
> select add #14.16
4 models selected
> select add #14.17
6 models selected
> select add #14.18
8 models selected
> select add #14.19
10 models selected
> select add #14.20
12 models selected
> select add #14.21
14 models selected
> select add #14.22
16 models selected
> select add #14.23
18 models selected
> view matrix models
> #14.15,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117,#14.16,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117,#14.17,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117,#14.18,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117,#14.19,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117,#14.20,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117,#14.21,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117,#14.22,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117,#14.23,1,0,0,-68.925,0,1,0,104.74,0,0,1,57.117
> view matrix models
> #14.15,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142,#14.16,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142,#14.17,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142,#14.18,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142,#14.19,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142,#14.20,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142,#14.21,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142,#14.22,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142,#14.23,1,0,0,-96.837,0,1,0,102.08,0,0,1,27.142
> view matrix models
> #14.15,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579,#14.16,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579,#14.17,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579,#14.18,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579,#14.19,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579,#14.20,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579,#14.21,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579,#14.22,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579,#14.23,1,0,0,-65.181,0,1,0,53.821,0,0,1,29.579
> view matrix models
> #14.15,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75,#14.16,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75,#14.17,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75,#14.18,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75,#14.19,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75,#14.20,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75,#14.21,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75,#14.22,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75,#14.23,1,0,0,-77.629,0,1,0,33.838,0,0,1,28.75
> view matrix models
> #14.15,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659,#14.16,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659,#14.17,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659,#14.18,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659,#14.19,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659,#14.20,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659,#14.21,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659,#14.22,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659,#14.23,1,0,0,-78.116,0,1,0,35.862,0,0,1,27.659
> view matrix models
> #14.15,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102,#14.16,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102,#14.17,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102,#14.18,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102,#14.19,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102,#14.20,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102,#14.21,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102,#14.22,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102,#14.23,1,0,0,-78.075,0,1,0,35.383,0,0,1,32.102
> ui mousemode right "rotate selected models"
> view matrix models
> #14.15,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37,#14.16,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37,#14.17,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37,#14.18,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37,#14.19,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37,#14.20,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37,#14.21,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37,#14.22,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37,#14.23,0.78671,-0.26234,0.5588,-106.97,-0.023509,0.89182,0.45178,-45.776,-0.61687,-0.36856,0.69544,332.37
> view matrix models
> #14.15,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97,#14.16,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97,#14.17,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97,#14.18,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97,#14.19,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97,#14.20,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97,#14.21,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97,#14.22,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97,#14.23,0.60873,-0.22157,0.76181,-121.19,0.14191,0.97513,0.17022,-35.202,-0.78058,0.0044874,0.62504,311.97
> view matrix models
> #14.15,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18,#14.16,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18,#14.17,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18,#14.18,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18,#14.19,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18,#14.20,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18,#14.21,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18,#14.22,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18,#14.23,0.50319,-0.24916,0.82748,-105.66,0.084408,0.96713,0.23988,-36.394,-0.86004,-0.050861,0.50768,371.18
> view matrix models
> #14.15,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05,#14.16,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05,#14.17,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05,#14.18,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05,#14.19,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05,#14.20,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05,#14.21,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05,#14.22,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05,#14.23,0.44234,0.28786,0.8494,-207.42,-0.21986,0.953,-0.20847,149.1,-0.86948,-0.094539,0.48483,388.05
> view matrix models
> #14.15,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82,#14.16,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82,#14.17,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82,#14.18,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82,#14.19,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82,#14.20,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82,#14.21,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82,#14.22,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82,#14.23,0.81388,0.075735,0.57607,-187.82,0.0016559,0.99116,-0.13265,68.902,-0.58103,0.10891,0.80656,197.82
> ui mousemode right "translate selected models"
> view matrix models
> #14.15,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75,#14.16,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75,#14.17,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75,#14.18,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75,#14.19,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75,#14.20,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75,#14.21,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75,#14.22,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75,#14.23,0.81388,0.075735,0.57607,-188.22,0.0016559,0.99116,-0.13265,68.436,-0.58103,0.10891,0.80656,197.75
> view matrix models
> #14.15,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03,#14.16,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03,#14.17,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03,#14.18,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03,#14.19,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03,#14.20,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03,#14.21,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03,#14.22,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03,#14.23,0.81388,0.075735,0.57607,-186.98,0.0016559,0.99116,-0.13265,67.443,-0.58103,0.10891,0.80656,197.03
> view matrix models
> #14.15,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47,#14.16,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47,#14.17,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47,#14.18,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47,#14.19,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47,#14.20,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47,#14.21,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47,#14.22,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47,#14.23,0.81388,0.075735,0.57607,-186.51,0.0016559,0.99116,-0.13265,67.636,-0.58103,0.10891,0.80656,198.47
> view matrix models
> #14.15,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61,#14.16,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61,#14.17,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61,#14.18,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61,#14.19,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61,#14.20,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61,#14.21,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61,#14.22,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61,#14.23,0.81388,0.075735,0.57607,-187.18,0.0016559,0.99116,-0.13265,67.836,-0.58103,0.10891,0.80656,198.61
> ui mousemode right "rotate selected models"
> view matrix models
> #14.15,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62,#14.16,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62,#14.17,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62,#14.18,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62,#14.19,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62,#14.20,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62,#14.21,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62,#14.22,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62,#14.23,0.80637,0.079242,0.58608,-188.5,-0.0016891,0.99129,-0.1317,68.397,-0.59141,0.10521,0.79948,203.62
> view matrix models
> #14.15,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18,#14.16,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18,#14.17,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18,#14.18,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18,#14.19,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18,#14.20,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18,#14.21,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18,#14.22,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18,#14.23,0.82585,0.1142,0.55221,-192.29,-0.11828,0.99257,-0.028377,71.523,-0.55135,-0.04188,0.83322,216.18
> view matrix models
> #14.15,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91,#14.16,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91,#14.17,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91,#14.18,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91,#14.19,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91,#14.20,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91,#14.21,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91,#14.22,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91,#14.23,0.80837,0.19311,0.5561,-205.33,-0.13995,0.98062,-0.13709,105.58,-0.5718,0.032986,0.81973,208.91
> ui mousemode right "translate selected models"
> view matrix models
> #14.15,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48,#14.16,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48,#14.17,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48,#14.18,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48,#14.19,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48,#14.20,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48,#14.21,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48,#14.22,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48,#14.23,0.80837,0.19311,0.5561,-205.4,-0.13995,0.98062,-0.13709,105.54,-0.5718,0.032986,0.81973,208.48
> select subtract #14.16
16 models selected
> select subtract #14.15
14 models selected
> select add #14.16
16 models selected
> view matrix models
> #14.16,0.80837,0.19311,0.5561,-203.49,-0.13995,0.98062,-0.13709,96.57,-0.5718,0.032986,0.81973,158.64,#14.17,0.80837,0.19311,0.5561,-203.49,-0.13995,0.98062,-0.13709,96.57,-0.5718,0.032986,0.81973,158.64,#14.18,0.80837,0.19311,0.5561,-203.49,-0.13995,0.98062,-0.13709,96.57,-0.5718,0.032986,0.81973,158.64,#14.19,0.80837,0.19311,0.5561,-203.49,-0.13995,0.98062,-0.13709,96.57,-0.5718,0.032986,0.81973,158.64,#14.20,0.80837,0.19311,0.5561,-203.49,-0.13995,0.98062,-0.13709,96.57,-0.5718,0.032986,0.81973,158.64,#14.21,0.80837,0.19311,0.5561,-203.49,-0.13995,0.98062,-0.13709,96.57,-0.5718,0.032986,0.81973,158.64,#14.22,0.80837,0.19311,0.5561,-203.49,-0.13995,0.98062,-0.13709,96.57,-0.5718,0.032986,0.81973,158.64,#14.23,0.80837,0.19311,0.5561,-203.49,-0.13995,0.98062,-0.13709,96.57,-0.5718,0.032986,0.81973,158.64
> view matrix models
> #14.16,0.80837,0.19311,0.5561,-206.5,-0.13995,0.98062,-0.13709,105.1,-0.5718,0.032986,0.81973,152.72,#14.17,0.80837,0.19311,0.5561,-206.5,-0.13995,0.98062,-0.13709,105.1,-0.5718,0.032986,0.81973,152.72,#14.18,0.80837,0.19311,0.5561,-206.5,-0.13995,0.98062,-0.13709,105.1,-0.5718,0.032986,0.81973,152.72,#14.19,0.80837,0.19311,0.5561,-206.5,-0.13995,0.98062,-0.13709,105.1,-0.5718,0.032986,0.81973,152.72,#14.20,0.80837,0.19311,0.5561,-206.5,-0.13995,0.98062,-0.13709,105.1,-0.5718,0.032986,0.81973,152.72,#14.21,0.80837,0.19311,0.5561,-206.5,-0.13995,0.98062,-0.13709,105.1,-0.5718,0.032986,0.81973,152.72,#14.22,0.80837,0.19311,0.5561,-206.5,-0.13995,0.98062,-0.13709,105.1,-0.5718,0.032986,0.81973,152.72,#14.23,0.80837,0.19311,0.5561,-206.5,-0.13995,0.98062,-0.13709,105.1,-0.5718,0.032986,0.81973,152.72
> view matrix models
> #14.16,0.80837,0.19311,0.5561,-206.23,-0.13995,0.98062,-0.13709,105.09,-0.5718,0.032986,0.81973,154.82,#14.17,0.80837,0.19311,0.5561,-206.23,-0.13995,0.98062,-0.13709,105.09,-0.5718,0.032986,0.81973,154.82,#14.18,0.80837,0.19311,0.5561,-206.23,-0.13995,0.98062,-0.13709,105.09,-0.5718,0.032986,0.81973,154.82,#14.19,0.80837,0.19311,0.5561,-206.23,-0.13995,0.98062,-0.13709,105.09,-0.5718,0.032986,0.81973,154.82,#14.20,0.80837,0.19311,0.5561,-206.23,-0.13995,0.98062,-0.13709,105.09,-0.5718,0.032986,0.81973,154.82,#14.21,0.80837,0.19311,0.5561,-206.23,-0.13995,0.98062,-0.13709,105.09,-0.5718,0.032986,0.81973,154.82,#14.22,0.80837,0.19311,0.5561,-206.23,-0.13995,0.98062,-0.13709,105.09,-0.5718,0.032986,0.81973,154.82,#14.23,0.80837,0.19311,0.5561,-206.23,-0.13995,0.98062,-0.13709,105.09,-0.5718,0.032986,0.81973,154.82
> view matrix models
> #14.16,0.80837,0.19311,0.5561,-206.44,-0.13995,0.98062,-0.13709,104.71,-0.5718,0.032986,0.81973,154.58,#14.17,0.80837,0.19311,0.5561,-206.44,-0.13995,0.98062,-0.13709,104.71,-0.5718,0.032986,0.81973,154.58,#14.18,0.80837,0.19311,0.5561,-206.44,-0.13995,0.98062,-0.13709,104.71,-0.5718,0.032986,0.81973,154.58,#14.19,0.80837,0.19311,0.5561,-206.44,-0.13995,0.98062,-0.13709,104.71,-0.5718,0.032986,0.81973,154.58,#14.20,0.80837,0.19311,0.5561,-206.44,-0.13995,0.98062,-0.13709,104.71,-0.5718,0.032986,0.81973,154.58,#14.21,0.80837,0.19311,0.5561,-206.44,-0.13995,0.98062,-0.13709,104.71,-0.5718,0.032986,0.81973,154.58,#14.22,0.80837,0.19311,0.5561,-206.44,-0.13995,0.98062,-0.13709,104.71,-0.5718,0.032986,0.81973,154.58,#14.23,0.80837,0.19311,0.5561,-206.44,-0.13995,0.98062,-0.13709,104.71,-0.5718,0.032986,0.81973,154.58
> view matrix models
> #14.16,0.80837,0.19311,0.5561,-206.13,-0.13995,0.98062,-0.13709,105.2,-0.5718,0.032986,0.81973,154.55,#14.17,0.80837,0.19311,0.5561,-206.13,-0.13995,0.98062,-0.13709,105.2,-0.5718,0.032986,0.81973,154.55,#14.18,0.80837,0.19311,0.5561,-206.13,-0.13995,0.98062,-0.13709,105.2,-0.5718,0.032986,0.81973,154.55,#14.19,0.80837,0.19311,0.5561,-206.13,-0.13995,0.98062,-0.13709,105.2,-0.5718,0.032986,0.81973,154.55,#14.20,0.80837,0.19311,0.5561,-206.13,-0.13995,0.98062,-0.13709,105.2,-0.5718,0.032986,0.81973,154.55,#14.21,0.80837,0.19311,0.5561,-206.13,-0.13995,0.98062,-0.13709,105.2,-0.5718,0.032986,0.81973,154.55,#14.22,0.80837,0.19311,0.5561,-206.13,-0.13995,0.98062,-0.13709,105.2,-0.5718,0.032986,0.81973,154.55,#14.23,0.80837,0.19311,0.5561,-206.13,-0.13995,0.98062,-0.13709,105.2,-0.5718,0.032986,0.81973,154.55
> select subtract #14.16
14 models selected
> view matrix models
> #14.17,0.80837,0.19311,0.5561,-203.34,-0.13995,0.98062,-0.13709,99.117,-0.5718,0.032986,0.81973,99.51,#14.18,0.80837,0.19311,0.5561,-203.34,-0.13995,0.98062,-0.13709,99.117,-0.5718,0.032986,0.81973,99.51,#14.19,0.80837,0.19311,0.5561,-203.34,-0.13995,0.98062,-0.13709,99.117,-0.5718,0.032986,0.81973,99.51,#14.20,0.80837,0.19311,0.5561,-203.34,-0.13995,0.98062,-0.13709,99.117,-0.5718,0.032986,0.81973,99.51,#14.21,0.80837,0.19311,0.5561,-203.34,-0.13995,0.98062,-0.13709,99.117,-0.5718,0.032986,0.81973,99.51,#14.22,0.80837,0.19311,0.5561,-203.34,-0.13995,0.98062,-0.13709,99.117,-0.5718,0.032986,0.81973,99.51,#14.23,0.80837,0.19311,0.5561,-203.34,-0.13995,0.98062,-0.13709,99.117,-0.5718,0.032986,0.81973,99.51
> view matrix models
> #14.17,0.80837,0.19311,0.5561,-207.75,-0.13995,0.98062,-0.13709,101.02,-0.5718,0.032986,0.81973,101.67,#14.18,0.80837,0.19311,0.5561,-207.75,-0.13995,0.98062,-0.13709,101.02,-0.5718,0.032986,0.81973,101.67,#14.19,0.80837,0.19311,0.5561,-207.75,-0.13995,0.98062,-0.13709,101.02,-0.5718,0.032986,0.81973,101.67,#14.20,0.80837,0.19311,0.5561,-207.75,-0.13995,0.98062,-0.13709,101.02,-0.5718,0.032986,0.81973,101.67,#14.21,0.80837,0.19311,0.5561,-207.75,-0.13995,0.98062,-0.13709,101.02,-0.5718,0.032986,0.81973,101.67,#14.22,0.80837,0.19311,0.5561,-207.75,-0.13995,0.98062,-0.13709,101.02,-0.5718,0.032986,0.81973,101.67,#14.23,0.80837,0.19311,0.5561,-207.75,-0.13995,0.98062,-0.13709,101.02,-0.5718,0.032986,0.81973,101.67
> view matrix models
> #14.17,0.80837,0.19311,0.5561,-208.55,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,100.46,#14.18,0.80837,0.19311,0.5561,-208.55,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,100.46,#14.19,0.80837,0.19311,0.5561,-208.55,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,100.46,#14.20,0.80837,0.19311,0.5561,-208.55,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,100.46,#14.21,0.80837,0.19311,0.5561,-208.55,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,100.46,#14.22,0.80837,0.19311,0.5561,-208.55,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,100.46,#14.23,0.80837,0.19311,0.5561,-208.55,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,100.46
> view matrix models
> #14.17,0.80837,0.19311,0.5561,-207.51,-0.13995,0.98062,-0.13709,103.16,-0.5718,0.032986,0.81973,102.33,#14.18,0.80837,0.19311,0.5561,-207.51,-0.13995,0.98062,-0.13709,103.16,-0.5718,0.032986,0.81973,102.33,#14.19,0.80837,0.19311,0.5561,-207.51,-0.13995,0.98062,-0.13709,103.16,-0.5718,0.032986,0.81973,102.33,#14.20,0.80837,0.19311,0.5561,-207.51,-0.13995,0.98062,-0.13709,103.16,-0.5718,0.032986,0.81973,102.33,#14.21,0.80837,0.19311,0.5561,-207.51,-0.13995,0.98062,-0.13709,103.16,-0.5718,0.032986,0.81973,102.33,#14.22,0.80837,0.19311,0.5561,-207.51,-0.13995,0.98062,-0.13709,103.16,-0.5718,0.032986,0.81973,102.33,#14.23,0.80837,0.19311,0.5561,-207.51,-0.13995,0.98062,-0.13709,103.16,-0.5718,0.032986,0.81973,102.33
> view matrix models
> #14.17,0.80837,0.19311,0.5561,-207.45,-0.13995,0.98062,-0.13709,103.5,-0.5718,0.032986,0.81973,102,#14.18,0.80837,0.19311,0.5561,-207.45,-0.13995,0.98062,-0.13709,103.5,-0.5718,0.032986,0.81973,102,#14.19,0.80837,0.19311,0.5561,-207.45,-0.13995,0.98062,-0.13709,103.5,-0.5718,0.032986,0.81973,102,#14.20,0.80837,0.19311,0.5561,-207.45,-0.13995,0.98062,-0.13709,103.5,-0.5718,0.032986,0.81973,102,#14.21,0.80837,0.19311,0.5561,-207.45,-0.13995,0.98062,-0.13709,103.5,-0.5718,0.032986,0.81973,102,#14.22,0.80837,0.19311,0.5561,-207.45,-0.13995,0.98062,-0.13709,103.5,-0.5718,0.032986,0.81973,102,#14.23,0.80837,0.19311,0.5561,-207.45,-0.13995,0.98062,-0.13709,103.5,-0.5718,0.032986,0.81973,102
> view matrix models
> #14.17,0.80837,0.19311,0.5561,-207.35,-0.13995,0.98062,-0.13709,103.7,-0.5718,0.032986,0.81973,102.12,#14.18,0.80837,0.19311,0.5561,-207.35,-0.13995,0.98062,-0.13709,103.7,-0.5718,0.032986,0.81973,102.12,#14.19,0.80837,0.19311,0.5561,-207.35,-0.13995,0.98062,-0.13709,103.7,-0.5718,0.032986,0.81973,102.12,#14.20,0.80837,0.19311,0.5561,-207.35,-0.13995,0.98062,-0.13709,103.7,-0.5718,0.032986,0.81973,102.12,#14.21,0.80837,0.19311,0.5561,-207.35,-0.13995,0.98062,-0.13709,103.7,-0.5718,0.032986,0.81973,102.12,#14.22,0.80837,0.19311,0.5561,-207.35,-0.13995,0.98062,-0.13709,103.7,-0.5718,0.032986,0.81973,102.12,#14.23,0.80837,0.19311,0.5561,-207.35,-0.13995,0.98062,-0.13709,103.7,-0.5718,0.032986,0.81973,102.12
> view matrix models
> #14.17,0.80837,0.19311,0.5561,-207.34,-0.13995,0.98062,-0.13709,103.75,-0.5718,0.032986,0.81973,102.05,#14.18,0.80837,0.19311,0.5561,-207.34,-0.13995,0.98062,-0.13709,103.75,-0.5718,0.032986,0.81973,102.05,#14.19,0.80837,0.19311,0.5561,-207.34,-0.13995,0.98062,-0.13709,103.75,-0.5718,0.032986,0.81973,102.05,#14.20,0.80837,0.19311,0.5561,-207.34,-0.13995,0.98062,-0.13709,103.75,-0.5718,0.032986,0.81973,102.05,#14.21,0.80837,0.19311,0.5561,-207.34,-0.13995,0.98062,-0.13709,103.75,-0.5718,0.032986,0.81973,102.05,#14.22,0.80837,0.19311,0.5561,-207.34,-0.13995,0.98062,-0.13709,103.75,-0.5718,0.032986,0.81973,102.05,#14.23,0.80837,0.19311,0.5561,-207.34,-0.13995,0.98062,-0.13709,103.75,-0.5718,0.032986,0.81973,102.05
> select subtract #14.17
12 models selected
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-204.11,-0.13995,0.98062,-0.13709,90.914,-0.5718,0.032986,0.81973,54.118,#14.19,0.80837,0.19311,0.5561,-204.11,-0.13995,0.98062,-0.13709,90.914,-0.5718,0.032986,0.81973,54.118,#14.20,0.80837,0.19311,0.5561,-204.11,-0.13995,0.98062,-0.13709,90.914,-0.5718,0.032986,0.81973,54.118,#14.21,0.80837,0.19311,0.5561,-204.11,-0.13995,0.98062,-0.13709,90.914,-0.5718,0.032986,0.81973,54.118,#14.22,0.80837,0.19311,0.5561,-204.11,-0.13995,0.98062,-0.13709,90.914,-0.5718,0.032986,0.81973,54.118,#14.23,0.80837,0.19311,0.5561,-204.11,-0.13995,0.98062,-0.13709,90.914,-0.5718,0.032986,0.81973,54.118
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-207.28,-0.13995,0.98062,-0.13709,97.924,-0.5718,0.032986,0.81973,40.97,#14.19,0.80837,0.19311,0.5561,-207.28,-0.13995,0.98062,-0.13709,97.924,-0.5718,0.032986,0.81973,40.97,#14.20,0.80837,0.19311,0.5561,-207.28,-0.13995,0.98062,-0.13709,97.924,-0.5718,0.032986,0.81973,40.97,#14.21,0.80837,0.19311,0.5561,-207.28,-0.13995,0.98062,-0.13709,97.924,-0.5718,0.032986,0.81973,40.97,#14.22,0.80837,0.19311,0.5561,-207.28,-0.13995,0.98062,-0.13709,97.924,-0.5718,0.032986,0.81973,40.97,#14.23,0.80837,0.19311,0.5561,-207.28,-0.13995,0.98062,-0.13709,97.924,-0.5718,0.032986,0.81973,40.97
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-208.36,-0.13995,0.98062,-0.13709,99.272,-0.5718,0.032986,0.81973,48.884,#14.19,0.80837,0.19311,0.5561,-208.36,-0.13995,0.98062,-0.13709,99.272,-0.5718,0.032986,0.81973,48.884,#14.20,0.80837,0.19311,0.5561,-208.36,-0.13995,0.98062,-0.13709,99.272,-0.5718,0.032986,0.81973,48.884,#14.21,0.80837,0.19311,0.5561,-208.36,-0.13995,0.98062,-0.13709,99.272,-0.5718,0.032986,0.81973,48.884,#14.22,0.80837,0.19311,0.5561,-208.36,-0.13995,0.98062,-0.13709,99.272,-0.5718,0.032986,0.81973,48.884,#14.23,0.80837,0.19311,0.5561,-208.36,-0.13995,0.98062,-0.13709,99.272,-0.5718,0.032986,0.81973,48.884
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-210,-0.13995,0.98062,-0.13709,101.32,-0.5718,0.032986,0.81973,47.352,#14.19,0.80837,0.19311,0.5561,-210,-0.13995,0.98062,-0.13709,101.32,-0.5718,0.032986,0.81973,47.352,#14.20,0.80837,0.19311,0.5561,-210,-0.13995,0.98062,-0.13709,101.32,-0.5718,0.032986,0.81973,47.352,#14.21,0.80837,0.19311,0.5561,-210,-0.13995,0.98062,-0.13709,101.32,-0.5718,0.032986,0.81973,47.352,#14.22,0.80837,0.19311,0.5561,-210,-0.13995,0.98062,-0.13709,101.32,-0.5718,0.032986,0.81973,47.352,#14.23,0.80837,0.19311,0.5561,-210,-0.13995,0.98062,-0.13709,101.32,-0.5718,0.032986,0.81973,47.352
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-210.48,-0.13995,0.98062,-0.13709,101.64,-0.5718,0.032986,0.81973,49.476,#14.19,0.80837,0.19311,0.5561,-210.48,-0.13995,0.98062,-0.13709,101.64,-0.5718,0.032986,0.81973,49.476,#14.20,0.80837,0.19311,0.5561,-210.48,-0.13995,0.98062,-0.13709,101.64,-0.5718,0.032986,0.81973,49.476,#14.21,0.80837,0.19311,0.5561,-210.48,-0.13995,0.98062,-0.13709,101.64,-0.5718,0.032986,0.81973,49.476,#14.22,0.80837,0.19311,0.5561,-210.48,-0.13995,0.98062,-0.13709,101.64,-0.5718,0.032986,0.81973,49.476,#14.23,0.80837,0.19311,0.5561,-210.48,-0.13995,0.98062,-0.13709,101.64,-0.5718,0.032986,0.81973,49.476
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-210.66,-0.13995,0.98062,-0.13709,102.23,-0.5718,0.032986,0.81973,49.688,#14.19,0.80837,0.19311,0.5561,-210.66,-0.13995,0.98062,-0.13709,102.23,-0.5718,0.032986,0.81973,49.688,#14.20,0.80837,0.19311,0.5561,-210.66,-0.13995,0.98062,-0.13709,102.23,-0.5718,0.032986,0.81973,49.688,#14.21,0.80837,0.19311,0.5561,-210.66,-0.13995,0.98062,-0.13709,102.23,-0.5718,0.032986,0.81973,49.688,#14.22,0.80837,0.19311,0.5561,-210.66,-0.13995,0.98062,-0.13709,102.23,-0.5718,0.032986,0.81973,49.688,#14.23,0.80837,0.19311,0.5561,-210.66,-0.13995,0.98062,-0.13709,102.23,-0.5718,0.032986,0.81973,49.688
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-210.8,-0.13995,0.98062,-0.13709,101.87,-0.5718,0.032986,0.81973,49.66,#14.19,0.80837,0.19311,0.5561,-210.8,-0.13995,0.98062,-0.13709,101.87,-0.5718,0.032986,0.81973,49.66,#14.20,0.80837,0.19311,0.5561,-210.8,-0.13995,0.98062,-0.13709,101.87,-0.5718,0.032986,0.81973,49.66,#14.21,0.80837,0.19311,0.5561,-210.8,-0.13995,0.98062,-0.13709,101.87,-0.5718,0.032986,0.81973,49.66,#14.22,0.80837,0.19311,0.5561,-210.8,-0.13995,0.98062,-0.13709,101.87,-0.5718,0.032986,0.81973,49.66,#14.23,0.80837,0.19311,0.5561,-210.8,-0.13995,0.98062,-0.13709,101.87,-0.5718,0.032986,0.81973,49.66
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-210.52,-0.13995,0.98062,-0.13709,102.68,-0.5718,0.032986,0.81973,49.65,#14.19,0.80837,0.19311,0.5561,-210.52,-0.13995,0.98062,-0.13709,102.68,-0.5718,0.032986,0.81973,49.65,#14.20,0.80837,0.19311,0.5561,-210.52,-0.13995,0.98062,-0.13709,102.68,-0.5718,0.032986,0.81973,49.65,#14.21,0.80837,0.19311,0.5561,-210.52,-0.13995,0.98062,-0.13709,102.68,-0.5718,0.032986,0.81973,49.65,#14.22,0.80837,0.19311,0.5561,-210.52,-0.13995,0.98062,-0.13709,102.68,-0.5718,0.032986,0.81973,49.65,#14.23,0.80837,0.19311,0.5561,-210.52,-0.13995,0.98062,-0.13709,102.68,-0.5718,0.032986,0.81973,49.65
> view matrix models
> #14.18,0.80837,0.19311,0.5561,-210.88,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,49.281,#14.19,0.80837,0.19311,0.5561,-210.88,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,49.281,#14.20,0.80837,0.19311,0.5561,-210.88,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,49.281,#14.21,0.80837,0.19311,0.5561,-210.88,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,49.281,#14.22,0.80837,0.19311,0.5561,-210.88,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,49.281,#14.23,0.80837,0.19311,0.5561,-210.88,-0.13995,0.98062,-0.13709,101.99,-0.5718,0.032986,0.81973,49.281
> ui mousemode right "rotate selected models"
> view matrix models
> #14.18,0.90217,0.16478,0.39866,-189.76,-0.14506,0.98623,-0.079383,88.113,-0.40625,0.013788,0.91366,-9.7772,#14.19,0.90217,0.16478,0.39866,-189.76,-0.14506,0.98623,-0.079383,88.113,-0.40625,0.013788,0.91366,-9.7772,#14.20,0.90217,0.16478,0.39866,-189.76,-0.14506,0.98623,-0.079383,88.113,-0.40625,0.013788,0.91366,-9.7772,#14.21,0.90217,0.16478,0.39866,-189.76,-0.14506,0.98623,-0.079383,88.113,-0.40625,0.013788,0.91366,-9.7772,#14.22,0.90217,0.16478,0.39866,-189.76,-0.14506,0.98623,-0.079383,88.113,-0.40625,0.013788,0.91366,-9.7772,#14.23,0.90217,0.16478,0.39866,-189.76,-0.14506,0.98623,-0.079383,88.113,-0.40625,0.013788,0.91366,-9.7772
> view matrix models
> #14.18,0.73256,-0.0785,0.67616,-165.18,7.8761e-05,0.99334,0.11524,4.2132,-0.6807,-0.084367,0.72769,122.38,#14.19,0.73256,-0.0785,0.67616,-165.18,7.8761e-05,0.99334,0.11524,4.2132,-0.6807,-0.084367,0.72769,122.38,#14.20,0.73256,-0.0785,0.67616,-165.18,7.8761e-05,0.99334,0.11524,4.2132,-0.6807,-0.084367,0.72769,122.38,#14.21,0.73256,-0.0785,0.67616,-165.18,7.8761e-05,0.99334,0.11524,4.2132,-0.6807,-0.084367,0.72769,122.38,#14.22,0.73256,-0.0785,0.67616,-165.18,7.8761e-05,0.99334,0.11524,4.2132,-0.6807,-0.084367,0.72769,122.38,#14.23,0.73256,-0.0785,0.67616,-165.18,7.8761e-05,0.99334,0.11524,4.2132,-0.6807,-0.084367,0.72769,122.38
> view matrix models
> #14.18,0.81738,-0.27013,0.50884,-105.65,0.13286,0.94783,0.28976,-60.912,-0.56057,-0.16924,0.81063,90.652,#14.19,0.81738,-0.27013,0.50884,-105.65,0.13286,0.94783,0.28976,-60.912,-0.56057,-0.16924,0.81063,90.652,#14.20,0.81738,-0.27013,0.50884,-105.65,0.13286,0.94783,0.28976,-60.912,-0.56057,-0.16924,0.81063,90.652,#14.21,0.81738,-0.27013,0.50884,-105.65,0.13286,0.94783,0.28976,-60.912,-0.56057,-0.16924,0.81063,90.652,#14.22,0.81738,-0.27013,0.50884,-105.65,0.13286,0.94783,0.28976,-60.912,-0.56057,-0.16924,0.81063,90.652,#14.23,0.81738,-0.27013,0.50884,-105.65,0.13286,0.94783,0.28976,-60.912,-0.56057,-0.16924,0.81063,90.652
> ui mousemode right "translate selected models"
> view matrix models
> #14.18,0.81738,-0.27013,0.50884,-106.1,0.13286,0.94783,0.28976,-61.548,-0.56057,-0.16924,0.81063,90.541,#14.19,0.81738,-0.27013,0.50884,-106.1,0.13286,0.94783,0.28976,-61.548,-0.56057,-0.16924,0.81063,90.541,#14.20,0.81738,-0.27013,0.50884,-106.1,0.13286,0.94783,0.28976,-61.548,-0.56057,-0.16924,0.81063,90.541,#14.21,0.81738,-0.27013,0.50884,-106.1,0.13286,0.94783,0.28976,-61.548,-0.56057,-0.16924,0.81063,90.541,#14.22,0.81738,-0.27013,0.50884,-106.1,0.13286,0.94783,0.28976,-61.548,-0.56057,-0.16924,0.81063,90.541,#14.23,0.81738,-0.27013,0.50884,-106.1,0.13286,0.94783,0.28976,-61.548,-0.56057,-0.16924,0.81063,90.541
> view matrix models
> #14.18,0.81738,-0.27013,0.50884,-106.17,0.13286,0.94783,0.28976,-60.954,-0.56057,-0.16924,0.81063,88.552,#14.19,0.81738,-0.27013,0.50884,-106.17,0.13286,0.94783,0.28976,-60.954,-0.56057,-0.16924,0.81063,88.552,#14.20,0.81738,-0.27013,0.50884,-106.17,0.13286,0.94783,0.28976,-60.954,-0.56057,-0.16924,0.81063,88.552,#14.21,0.81738,-0.27013,0.50884,-106.17,0.13286,0.94783,0.28976,-60.954,-0.56057,-0.16924,0.81063,88.552,#14.22,0.81738,-0.27013,0.50884,-106.17,0.13286,0.94783,0.28976,-60.954,-0.56057,-0.16924,0.81063,88.552,#14.23,0.81738,-0.27013,0.50884,-106.17,0.13286,0.94783,0.28976,-60.954,-0.56057,-0.16924,0.81063,88.552
> view matrix models
> #14.18,0.81738,-0.27013,0.50884,-105.89,0.13286,0.94783,0.28976,-61.165,-0.56057,-0.16924,0.81063,89.277,#14.19,0.81738,-0.27013,0.50884,-105.89,0.13286,0.94783,0.28976,-61.165,-0.56057,-0.16924,0.81063,89.277,#14.20,0.81738,-0.27013,0.50884,-105.89,0.13286,0.94783,0.28976,-61.165,-0.56057,-0.16924,0.81063,89.277,#14.21,0.81738,-0.27013,0.50884,-105.89,0.13286,0.94783,0.28976,-61.165,-0.56057,-0.16924,0.81063,89.277,#14.22,0.81738,-0.27013,0.50884,-105.89,0.13286,0.94783,0.28976,-61.165,-0.56057,-0.16924,0.81063,89.277,#14.23,0.81738,-0.27013,0.50884,-105.89,0.13286,0.94783,0.28976,-61.165,-0.56057,-0.16924,0.81063,89.277
> view matrix models
> #14.18,0.81738,-0.27013,0.50884,-105.8,0.13286,0.94783,0.28976,-61.106,-0.56057,-0.16924,0.81063,89.336,#14.19,0.81738,-0.27013,0.50884,-105.8,0.13286,0.94783,0.28976,-61.106,-0.56057,-0.16924,0.81063,89.336,#14.20,0.81738,-0.27013,0.50884,-105.8,0.13286,0.94783,0.28976,-61.106,-0.56057,-0.16924,0.81063,89.336,#14.21,0.81738,-0.27013,0.50884,-105.8,0.13286,0.94783,0.28976,-61.106,-0.56057,-0.16924,0.81063,89.336,#14.22,0.81738,-0.27013,0.50884,-105.8,0.13286,0.94783,0.28976,-61.106,-0.56057,-0.16924,0.81063,89.336,#14.23,0.81738,-0.27013,0.50884,-105.8,0.13286,0.94783,0.28976,-61.106,-0.56057,-0.16924,0.81063,89.336
> view matrix models
> #14.18,0.81738,-0.27013,0.50884,-106.01,0.13286,0.94783,0.28976,-61.448,-0.56057,-0.16924,0.81063,89.2,#14.19,0.81738,-0.27013,0.50884,-106.01,0.13286,0.94783,0.28976,-61.448,-0.56057,-0.16924,0.81063,89.2,#14.20,0.81738,-0.27013,0.50884,-106.01,0.13286,0.94783,0.28976,-61.448,-0.56057,-0.16924,0.81063,89.2,#14.21,0.81738,-0.27013,0.50884,-106.01,0.13286,0.94783,0.28976,-61.448,-0.56057,-0.16924,0.81063,89.2,#14.22,0.81738,-0.27013,0.50884,-106.01,0.13286,0.94783,0.28976,-61.448,-0.56057,-0.16924,0.81063,89.2,#14.23,0.81738,-0.27013,0.50884,-106.01,0.13286,0.94783,0.28976,-61.448,-0.56057,-0.16924,0.81063,89.2
> ui mousemode right "rotate selected models"
> view matrix models
> #14.18,0.79642,-0.10626,0.59534,-155.79,-0.038659,0.97348,0.22547,-9.4421,-0.60351,-0.20258,0.77119,116.11,#14.19,0.79642,-0.10626,0.59534,-155.79,-0.038659,0.97348,0.22547,-9.4421,-0.60351,-0.20258,0.77119,116.11,#14.20,0.79642,-0.10626,0.59534,-155.79,-0.038659,0.97348,0.22547,-9.4421,-0.60351,-0.20258,0.77119,116.11,#14.21,0.79642,-0.10626,0.59534,-155.79,-0.038659,0.97348,0.22547,-9.4421,-0.60351,-0.20258,0.77119,116.11,#14.22,0.79642,-0.10626,0.59534,-155.79,-0.038659,0.97348,0.22547,-9.4421,-0.60351,-0.20258,0.77119,116.11,#14.23,0.79642,-0.10626,0.59534,-155.79,-0.038659,0.97348,0.22547,-9.4421,-0.60351,-0.20258,0.77119,116.11
> view matrix models
> #14.18,0.81649,-0.10759,0.56725,-153.61,-0.079512,0.95217,0.29504,-11.909,-0.57186,-0.286,0.76888,126.25,#14.19,0.81649,-0.10759,0.56725,-153.61,-0.079512,0.95217,0.29504,-11.909,-0.57186,-0.286,0.76888,126.25,#14.20,0.81649,-0.10759,0.56725,-153.61,-0.079512,0.95217,0.29504,-11.909,-0.57186,-0.286,0.76888,126.25,#14.21,0.81649,-0.10759,0.56725,-153.61,-0.079512,0.95217,0.29504,-11.909,-0.57186,-0.286,0.76888,126.25,#14.22,0.81649,-0.10759,0.56725,-153.61,-0.079512,0.95217,0.29504,-11.909,-0.57186,-0.286,0.76888,126.25,#14.23,0.81649,-0.10759,0.56725,-153.61,-0.079512,0.95217,0.29504,-11.909,-0.57186,-0.286,0.76888,126.25
> ui mousemode right "translate selected models"
> view matrix models
> #14.18,0.81649,-0.10759,0.56725,-152.67,-0.079512,0.95217,0.29504,-11.54,-0.57186,-0.286,0.76888,126.11,#14.19,0.81649,-0.10759,0.56725,-152.67,-0.079512,0.95217,0.29504,-11.54,-0.57186,-0.286,0.76888,126.11,#14.20,0.81649,-0.10759,0.56725,-152.67,-0.079512,0.95217,0.29504,-11.54,-0.57186,-0.286,0.76888,126.11,#14.21,0.81649,-0.10759,0.56725,-152.67,-0.079512,0.95217,0.29504,-11.54,-0.57186,-0.286,0.76888,126.11,#14.22,0.81649,-0.10759,0.56725,-152.67,-0.079512,0.95217,0.29504,-11.54,-0.57186,-0.286,0.76888,126.11,#14.23,0.81649,-0.10759,0.56725,-152.67,-0.079512,0.95217,0.29504,-11.54,-0.57186,-0.286,0.76888,126.11
> view matrix models
> #14.18,0.81649,-0.10759,0.56725,-152.18,-0.079512,0.95217,0.29504,-10.902,-0.57186,-0.286,0.76888,126.17,#14.19,0.81649,-0.10759,0.56725,-152.18,-0.079512,0.95217,0.29504,-10.902,-0.57186,-0.286,0.76888,126.17,#14.20,0.81649,-0.10759,0.56725,-152.18,-0.079512,0.95217,0.29504,-10.902,-0.57186,-0.286,0.76888,126.17,#14.21,0.81649,-0.10759,0.56725,-152.18,-0.079512,0.95217,0.29504,-10.902,-0.57186,-0.286,0.76888,126.17,#14.22,0.81649,-0.10759,0.56725,-152.18,-0.079512,0.95217,0.29504,-10.902,-0.57186,-0.286,0.76888,126.17,#14.23,0.81649,-0.10759,0.56725,-152.18,-0.079512,0.95217,0.29504,-10.902,-0.57186,-0.286,0.76888,126.17
> view matrix models
> #14.18,0.81649,-0.10759,0.56725,-152.61,-0.079512,0.95217,0.29504,-10.823,-0.57186,-0.286,0.76888,125.9,#14.19,0.81649,-0.10759,0.56725,-152.61,-0.079512,0.95217,0.29504,-10.823,-0.57186,-0.286,0.76888,125.9,#14.20,0.81649,-0.10759,0.56725,-152.61,-0.079512,0.95217,0.29504,-10.823,-0.57186,-0.286,0.76888,125.9,#14.21,0.81649,-0.10759,0.56725,-152.61,-0.079512,0.95217,0.29504,-10.823,-0.57186,-0.286,0.76888,125.9,#14.22,0.81649,-0.10759,0.56725,-152.61,-0.079512,0.95217,0.29504,-10.823,-0.57186,-0.286,0.76888,125.9,#14.23,0.81649,-0.10759,0.56725,-152.61,-0.079512,0.95217,0.29504,-10.823,-0.57186,-0.286,0.76888,125.9
> view matrix models
> #14.18,0.81649,-0.10759,0.56725,-152.88,-0.079512,0.95217,0.29504,-10.987,-0.57186,-0.286,0.76888,125.93,#14.19,0.81649,-0.10759,0.56725,-152.88,-0.079512,0.95217,0.29504,-10.987,-0.57186,-0.286,0.76888,125.93,#14.20,0.81649,-0.10759,0.56725,-152.88,-0.079512,0.95217,0.29504,-10.987,-0.57186,-0.286,0.76888,125.93,#14.21,0.81649,-0.10759,0.56725,-152.88,-0.079512,0.95217,0.29504,-10.987,-0.57186,-0.286,0.76888,125.93,#14.22,0.81649,-0.10759,0.56725,-152.88,-0.079512,0.95217,0.29504,-10.987,-0.57186,-0.286,0.76888,125.93,#14.23,0.81649,-0.10759,0.56725,-152.88,-0.079512,0.95217,0.29504,-10.987,-0.57186,-0.286,0.76888,125.93
> select subtract #14.18
10 models selected
> view matrix models
> #14.19,0.81649,-0.10759,0.56725,-157.54,-0.079512,0.95217,0.29504,-34.41,-0.57186,-0.286,0.76888,312.17,#14.20,0.81649,-0.10759,0.56725,-157.54,-0.079512,0.95217,0.29504,-34.41,-0.57186,-0.286,0.76888,312.17,#14.21,0.81649,-0.10759,0.56725,-157.54,-0.079512,0.95217,0.29504,-34.41,-0.57186,-0.286,0.76888,312.17,#14.22,0.81649,-0.10759,0.56725,-157.54,-0.079512,0.95217,0.29504,-34.41,-0.57186,-0.286,0.76888,312.17,#14.23,0.81649,-0.10759,0.56725,-157.54,-0.079512,0.95217,0.29504,-34.41,-0.57186,-0.286,0.76888,312.17
> view matrix models
> #14.19,0.81649,-0.10759,0.56725,-182.32,-0.079512,0.95217,0.29504,-25.214,-0.57186,-0.286,0.76888,307.05,#14.20,0.81649,-0.10759,0.56725,-182.32,-0.079512,0.95217,0.29504,-25.214,-0.57186,-0.286,0.76888,307.05,#14.21,0.81649,-0.10759,0.56725,-182.32,-0.079512,0.95217,0.29504,-25.214,-0.57186,-0.286,0.76888,307.05,#14.22,0.81649,-0.10759,0.56725,-182.32,-0.079512,0.95217,0.29504,-25.214,-0.57186,-0.286,0.76888,307.05,#14.23,0.81649,-0.10759,0.56725,-182.32,-0.079512,0.95217,0.29504,-25.214,-0.57186,-0.286,0.76888,307.05
> ui mousemode right "rotate selected models"
> view matrix models
> #14.19,0.79616,-0.44478,0.41026,-69.512,0.27155,0.86853,0.41463,-122.3,-0.54074,-0.21871,0.81226,275.03,#14.20,0.79616,-0.44478,0.41026,-69.512,0.27155,0.86853,0.41463,-122.3,-0.54074,-0.21871,0.81226,275.03,#14.21,0.79616,-0.44478,0.41026,-69.512,0.27155,0.86853,0.41463,-122.3,-0.54074,-0.21871,0.81226,275.03,#14.22,0.79616,-0.44478,0.41026,-69.512,0.27155,0.86853,0.41463,-122.3,-0.54074,-0.21871,0.81226,275.03,#14.23,0.79616,-0.44478,0.41026,-69.512,0.27155,0.86853,0.41463,-122.3,-0.54074,-0.21871,0.81226,275.03
> view matrix models
> #14.19,0.5767,-0.8053,0.13748,124.63,0.68767,0.56937,0.45048,-170.31,-0.44105,-0.16525,0.88214,222.77,#14.20,0.5767,-0.8053,0.13748,124.63,0.68767,0.56937,0.45048,-170.31,-0.44105,-0.16525,0.88214,222.77,#14.21,0.5767,-0.8053,0.13748,124.63,0.68767,0.56937,0.45048,-170.31,-0.44105,-0.16525,0.88214,222.77,#14.22,0.5767,-0.8053,0.13748,124.63,0.68767,0.56937,0.45048,-170.31,-0.44105,-0.16525,0.88214,222.77,#14.23,0.5767,-0.8053,0.13748,124.63,0.68767,0.56937,0.45048,-170.31,-0.44105,-0.16525,0.88214,222.77
> view matrix models
> #14.19,0.67261,-0.69389,0.25713,49.239,0.56851,0.70697,0.4207,-162.61,-0.4737,-0.13679,0.87,227.76,#14.20,0.67261,-0.69389,0.25713,49.239,0.56851,0.70697,0.4207,-162.61,-0.4737,-0.13679,0.87,227.76,#14.21,0.67261,-0.69389,0.25713,49.239,0.56851,0.70697,0.4207,-162.61,-0.4737,-0.13679,0.87,227.76,#14.22,0.67261,-0.69389,0.25713,49.239,0.56851,0.70697,0.4207,-162.61,-0.4737,-0.13679,0.87,227.76,#14.23,0.67261,-0.69389,0.25713,49.239,0.56851,0.70697,0.4207,-162.61,-0.4737,-0.13679,0.87,227.76
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,4.3382,0.5163,0.78324,0.34636,-147.71,-0.48204,-0.068514,0.87347,214.8,#14.20,0.70787,-0.61793,0.34218,4.3382,0.5163,0.78324,0.34636,-147.71,-0.48204,-0.068514,0.87347,214.8,#14.21,0.70787,-0.61793,0.34218,4.3382,0.5163,0.78324,0.34636,-147.71,-0.48204,-0.068514,0.87347,214.8,#14.22,0.70787,-0.61793,0.34218,4.3382,0.5163,0.78324,0.34636,-147.71,-0.48204,-0.068514,0.87347,214.8,#14.23,0.70787,-0.61793,0.34218,4.3382,0.5163,0.78324,0.34636,-147.71,-0.48204,-0.068514,0.87347,214.8
> ui mousemode right "translate selected models"
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,6.9034,0.5163,0.78324,0.34636,-144.01,-0.48204,-0.068514,0.87347,223.11,#14.20,0.70787,-0.61793,0.34218,6.9034,0.5163,0.78324,0.34636,-144.01,-0.48204,-0.068514,0.87347,223.11,#14.21,0.70787,-0.61793,0.34218,6.9034,0.5163,0.78324,0.34636,-144.01,-0.48204,-0.068514,0.87347,223.11,#14.22,0.70787,-0.61793,0.34218,6.9034,0.5163,0.78324,0.34636,-144.01,-0.48204,-0.068514,0.87347,223.11,#14.23,0.70787,-0.61793,0.34218,6.9034,0.5163,0.78324,0.34636,-144.01,-0.48204,-0.068514,0.87347,223.11
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,16.063,0.5163,0.78324,0.34636,-147.73,-0.48204,-0.068514,0.87347,227.42,#14.20,0.70787,-0.61793,0.34218,16.063,0.5163,0.78324,0.34636,-147.73,-0.48204,-0.068514,0.87347,227.42,#14.21,0.70787,-0.61793,0.34218,16.063,0.5163,0.78324,0.34636,-147.73,-0.48204,-0.068514,0.87347,227.42,#14.22,0.70787,-0.61793,0.34218,16.063,0.5163,0.78324,0.34636,-147.73,-0.48204,-0.068514,0.87347,227.42,#14.23,0.70787,-0.61793,0.34218,16.063,0.5163,0.78324,0.34636,-147.73,-0.48204,-0.068514,0.87347,227.42
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,18.424,0.5163,0.78324,0.34636,-152.52,-0.48204,-0.068514,0.87347,220.75,#14.20,0.70787,-0.61793,0.34218,18.424,0.5163,0.78324,0.34636,-152.52,-0.48204,-0.068514,0.87347,220.75,#14.21,0.70787,-0.61793,0.34218,18.424,0.5163,0.78324,0.34636,-152.52,-0.48204,-0.068514,0.87347,220.75,#14.22,0.70787,-0.61793,0.34218,18.424,0.5163,0.78324,0.34636,-152.52,-0.48204,-0.068514,0.87347,220.75,#14.23,0.70787,-0.61793,0.34218,18.424,0.5163,0.78324,0.34636,-152.52,-0.48204,-0.068514,0.87347,220.75
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,17.595,0.5163,0.78324,0.34636,-151.81,-0.48204,-0.068514,0.87347,222.34,#14.20,0.70787,-0.61793,0.34218,17.595,0.5163,0.78324,0.34636,-151.81,-0.48204,-0.068514,0.87347,222.34,#14.21,0.70787,-0.61793,0.34218,17.595,0.5163,0.78324,0.34636,-151.81,-0.48204,-0.068514,0.87347,222.34,#14.22,0.70787,-0.61793,0.34218,17.595,0.5163,0.78324,0.34636,-151.81,-0.48204,-0.068514,0.87347,222.34,#14.23,0.70787,-0.61793,0.34218,17.595,0.5163,0.78324,0.34636,-151.81,-0.48204,-0.068514,0.87347,222.34
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,17.738,0.5163,0.78324,0.34636,-150.01,-0.48204,-0.068514,0.87347,220.54,#14.20,0.70787,-0.61793,0.34218,17.738,0.5163,0.78324,0.34636,-150.01,-0.48204,-0.068514,0.87347,220.54,#14.21,0.70787,-0.61793,0.34218,17.738,0.5163,0.78324,0.34636,-150.01,-0.48204,-0.068514,0.87347,220.54,#14.22,0.70787,-0.61793,0.34218,17.738,0.5163,0.78324,0.34636,-150.01,-0.48204,-0.068514,0.87347,220.54,#14.23,0.70787,-0.61793,0.34218,17.738,0.5163,0.78324,0.34636,-150.01,-0.48204,-0.068514,0.87347,220.54
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,17.314,0.5163,0.78324,0.34636,-150.91,-0.48204,-0.068514,0.87347,220.3,#14.20,0.70787,-0.61793,0.34218,17.314,0.5163,0.78324,0.34636,-150.91,-0.48204,-0.068514,0.87347,220.3,#14.21,0.70787,-0.61793,0.34218,17.314,0.5163,0.78324,0.34636,-150.91,-0.48204,-0.068514,0.87347,220.3,#14.22,0.70787,-0.61793,0.34218,17.314,0.5163,0.78324,0.34636,-150.91,-0.48204,-0.068514,0.87347,220.3,#14.23,0.70787,-0.61793,0.34218,17.314,0.5163,0.78324,0.34636,-150.91,-0.48204,-0.068514,0.87347,220.3
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,16.852,0.5163,0.78324,0.34636,-151.05,-0.48204,-0.068514,0.87347,220.2,#14.20,0.70787,-0.61793,0.34218,16.852,0.5163,0.78324,0.34636,-151.05,-0.48204,-0.068514,0.87347,220.2,#14.21,0.70787,-0.61793,0.34218,16.852,0.5163,0.78324,0.34636,-151.05,-0.48204,-0.068514,0.87347,220.2,#14.22,0.70787,-0.61793,0.34218,16.852,0.5163,0.78324,0.34636,-151.05,-0.48204,-0.068514,0.87347,220.2,#14.23,0.70787,-0.61793,0.34218,16.852,0.5163,0.78324,0.34636,-151.05,-0.48204,-0.068514,0.87347,220.2
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,16.921,0.5163,0.78324,0.34636,-150.7,-0.48204,-0.068514,0.87347,219.45,#14.20,0.70787,-0.61793,0.34218,16.921,0.5163,0.78324,0.34636,-150.7,-0.48204,-0.068514,0.87347,219.45,#14.21,0.70787,-0.61793,0.34218,16.921,0.5163,0.78324,0.34636,-150.7,-0.48204,-0.068514,0.87347,219.45,#14.22,0.70787,-0.61793,0.34218,16.921,0.5163,0.78324,0.34636,-150.7,-0.48204,-0.068514,0.87347,219.45,#14.23,0.70787,-0.61793,0.34218,16.921,0.5163,0.78324,0.34636,-150.7,-0.48204,-0.068514,0.87347,219.45
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,16.545,0.5163,0.78324,0.34636,-150.76,-0.48204,-0.068514,0.87347,220.07,#14.20,0.70787,-0.61793,0.34218,16.545,0.5163,0.78324,0.34636,-150.76,-0.48204,-0.068514,0.87347,220.07,#14.21,0.70787,-0.61793,0.34218,16.545,0.5163,0.78324,0.34636,-150.76,-0.48204,-0.068514,0.87347,220.07,#14.22,0.70787,-0.61793,0.34218,16.545,0.5163,0.78324,0.34636,-150.76,-0.48204,-0.068514,0.87347,220.07,#14.23,0.70787,-0.61793,0.34218,16.545,0.5163,0.78324,0.34636,-150.76,-0.48204,-0.068514,0.87347,220.07
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,16.918,0.5163,0.78324,0.34636,-150.94,-0.48204,-0.068514,0.87347,219.76,#14.20,0.70787,-0.61793,0.34218,16.918,0.5163,0.78324,0.34636,-150.94,-0.48204,-0.068514,0.87347,219.76,#14.21,0.70787,-0.61793,0.34218,16.918,0.5163,0.78324,0.34636,-150.94,-0.48204,-0.068514,0.87347,219.76,#14.22,0.70787,-0.61793,0.34218,16.918,0.5163,0.78324,0.34636,-150.94,-0.48204,-0.068514,0.87347,219.76,#14.23,0.70787,-0.61793,0.34218,16.918,0.5163,0.78324,0.34636,-150.94,-0.48204,-0.068514,0.87347,219.76
> view matrix models
> #14.19,0.70787,-0.61793,0.34218,17.024,0.5163,0.78324,0.34636,-150.78,-0.48204,-0.068514,0.87347,219.36,#14.20,0.70787,-0.61793,0.34218,17.024,0.5163,0.78324,0.34636,-150.78,-0.48204,-0.068514,0.87347,219.36,#14.21,0.70787,-0.61793,0.34218,17.024,0.5163,0.78324,0.34636,-150.78,-0.48204,-0.068514,0.87347,219.36,#14.22,0.70787,-0.61793,0.34218,17.024,0.5163,0.78324,0.34636,-150.78,-0.48204,-0.068514,0.87347,219.36,#14.23,0.70787,-0.61793,0.34218,17.024,0.5163,0.78324,0.34636,-150.78,-0.48204,-0.068514,0.87347,219.36
> ui mousemode right "rotate selected models"
> view matrix models
> #14.19,0.64774,-0.61616,0.44809,5.6773,0.58448,0.77915,0.2265,-137.54,-0.48869,0.11518,0.86482,185.01,#14.20,0.64774,-0.61616,0.44809,5.6773,0.58448,0.77915,0.2265,-137.54,-0.48869,0.11518,0.86482,185.01,#14.21,0.64774,-0.61616,0.44809,5.6773,0.58448,0.77915,0.2265,-137.54,-0.48869,0.11518,0.86482,185.01,#14.22,0.64774,-0.61616,0.44809,5.6773,0.58448,0.77915,0.2265,-137.54,-0.48869,0.11518,0.86482,185.01,#14.23,0.64774,-0.61616,0.44809,5.6773,0.58448,0.77915,0.2265,-137.54,-0.48869,0.11518,0.86482,185.01
> ui mousemode right "translate selected models"
> view matrix models
> #14.19,0.64774,-0.61616,0.44809,5.9331,0.58448,0.77915,0.2265,-137.96,-0.48869,0.11518,0.86482,185.4,#14.20,0.64774,-0.61616,0.44809,5.9331,0.58448,0.77915,0.2265,-137.96,-0.48869,0.11518,0.86482,185.4,#14.21,0.64774,-0.61616,0.44809,5.9331,0.58448,0.77915,0.2265,-137.96,-0.48869,0.11518,0.86482,185.4,#14.22,0.64774,-0.61616,0.44809,5.9331,0.58448,0.77915,0.2265,-137.96,-0.48869,0.11518,0.86482,185.4,#14.23,0.64774,-0.61616,0.44809,5.9331,0.58448,0.77915,0.2265,-137.96,-0.48869,0.11518,0.86482,185.4
> select subtract #14.19
8 models selected
> select subtract #14.20
6 models selected
> select add #14.20
8 models selected
> view matrix models
> #14.20,0.64774,-0.61616,0.44809,-1.6609,0.58448,0.77915,0.2265,-133.88,-0.48869,0.11518,0.86482,136.63,#14.21,0.64774,-0.61616,0.44809,-1.6609,0.58448,0.77915,0.2265,-133.88,-0.48869,0.11518,0.86482,136.63,#14.22,0.64774,-0.61616,0.44809,-1.6609,0.58448,0.77915,0.2265,-133.88,-0.48869,0.11518,0.86482,136.63,#14.23,0.64774,-0.61616,0.44809,-1.6609,0.58448,0.77915,0.2265,-133.88,-0.48869,0.11518,0.86482,136.63
> view matrix models
> #14.20,0.64774,-0.61616,0.44809,0.098104,0.58448,0.77915,0.2265,-139.37,-0.48869,0.11518,0.86482,134.04,#14.21,0.64774,-0.61616,0.44809,0.098104,0.58448,0.77915,0.2265,-139.37,-0.48869,0.11518,0.86482,134.04,#14.22,0.64774,-0.61616,0.44809,0.098104,0.58448,0.77915,0.2265,-139.37,-0.48869,0.11518,0.86482,134.04,#14.23,0.64774,-0.61616,0.44809,0.098104,0.58448,0.77915,0.2265,-139.37,-0.48869,0.11518,0.86482,134.04
> view matrix models
> #14.20,0.64774,-0.61616,0.44809,5.3447,0.58448,0.77915,0.2265,-138.74,-0.48869,0.11518,0.86482,133.24,#14.21,0.64774,-0.61616,0.44809,5.3447,0.58448,0.77915,0.2265,-138.74,-0.48869,0.11518,0.86482,133.24,#14.22,0.64774,-0.61616,0.44809,5.3447,0.58448,0.77915,0.2265,-138.74,-0.48869,0.11518,0.86482,133.24,#14.23,0.64774,-0.61616,0.44809,5.3447,0.58448,0.77915,0.2265,-138.74,-0.48869,0.11518,0.86482,133.24
> view matrix models
> #14.20,0.64774,-0.61616,0.44809,5.101,0.58448,0.77915,0.2265,-139.08,-0.48869,0.11518,0.86482,134.1,#14.21,0.64774,-0.61616,0.44809,5.101,0.58448,0.77915,0.2265,-139.08,-0.48869,0.11518,0.86482,134.1,#14.22,0.64774,-0.61616,0.44809,5.101,0.58448,0.77915,0.2265,-139.08,-0.48869,0.11518,0.86482,134.1,#14.23,0.64774,-0.61616,0.44809,5.101,0.58448,0.77915,0.2265,-139.08,-0.48869,0.11518,0.86482,134.1
> view matrix models
> #14.20,0.64774,-0.61616,0.44809,5.2881,0.58448,0.77915,0.2265,-138.92,-0.48869,0.11518,0.86482,134.18,#14.21,0.64774,-0.61616,0.44809,5.2881,0.58448,0.77915,0.2265,-138.92,-0.48869,0.11518,0.86482,134.18,#14.22,0.64774,-0.61616,0.44809,5.2881,0.58448,0.77915,0.2265,-138.92,-0.48869,0.11518,0.86482,134.18,#14.23,0.64774,-0.61616,0.44809,5.2881,0.58448,0.77915,0.2265,-138.92,-0.48869,0.11518,0.86482,134.18
> select subtract #14.20
6 models selected
> view matrix models
> #14.21,0.64774,-0.61616,0.44809,0.74509,0.58448,0.77915,0.2265,-135.74,-0.48869,0.11518,0.86482,84.115,#14.22,0.64774,-0.61616,0.44809,0.74509,0.58448,0.77915,0.2265,-135.74,-0.48869,0.11518,0.86482,84.115,#14.23,0.64774,-0.61616,0.44809,0.74509,0.58448,0.77915,0.2265,-135.74,-0.48869,0.11518,0.86482,84.115
> view matrix models
> #14.21,0.64774,-0.61616,0.44809,2.6699,0.58448,0.77915,0.2265,-139.45,-0.48869,0.11518,0.86482,81.537,#14.22,0.64774,-0.61616,0.44809,2.6699,0.58448,0.77915,0.2265,-139.45,-0.48869,0.11518,0.86482,81.537,#14.23,0.64774,-0.61616,0.44809,2.6699,0.58448,0.77915,0.2265,-139.45,-0.48869,0.11518,0.86482,81.537
> view matrix models
> #14.21,0.64774,-0.61616,0.44809,2.7772,0.58448,0.77915,0.2265,-139.73,-0.48869,0.11518,0.86482,82.862,#14.22,0.64774,-0.61616,0.44809,2.7772,0.58448,0.77915,0.2265,-139.73,-0.48869,0.11518,0.86482,82.862,#14.23,0.64774,-0.61616,0.44809,2.7772,0.58448,0.77915,0.2265,-139.73,-0.48869,0.11518,0.86482,82.862
> view matrix models
> #14.21,0.64774,-0.61616,0.44809,3.4841,0.58448,0.77915,0.2265,-139.77,-0.48869,0.11518,0.86482,82.785,#14.22,0.64774,-0.61616,0.44809,3.4841,0.58448,0.77915,0.2265,-139.77,-0.48869,0.11518,0.86482,82.785,#14.23,0.64774,-0.61616,0.44809,3.4841,0.58448,0.77915,0.2265,-139.77,-0.48869,0.11518,0.86482,82.785
> view matrix models
> #14.21,0.64774,-0.61616,0.44809,3.5968,0.58448,0.77915,0.2265,-139.8,-0.48869,0.11518,0.86482,82.632,#14.22,0.64774,-0.61616,0.44809,3.5968,0.58448,0.77915,0.2265,-139.8,-0.48869,0.11518,0.86482,82.632,#14.23,0.64774,-0.61616,0.44809,3.5968,0.58448,0.77915,0.2265,-139.8,-0.48869,0.11518,0.86482,82.632
> select subtract #14.21
4 models selected
> view matrix models
> #14.22,0.64774,-0.61616,0.44809,9.6705,0.58448,0.77915,0.2265,-147.01,-0.48869,0.11518,0.86482,35.369,#14.23,0.64774,-0.61616,0.44809,9.6705,0.58448,0.77915,0.2265,-147.01,-0.48869,0.11518,0.86482,35.369
> view matrix models
> #14.22,0.64774,-0.61616,0.44809,4.3118,0.58448,0.77915,0.2265,-144.16,-0.48869,0.11518,0.86482,28.201,#14.23,0.64774,-0.61616,0.44809,4.3118,0.58448,0.77915,0.2265,-144.16,-0.48869,0.11518,0.86482,28.201
> view matrix models
> #14.22,0.64774,-0.61616,0.44809,2.607,0.58448,0.77915,0.2265,-142.28,-0.48869,0.11518,0.86482,30.332,#14.23,0.64774,-0.61616,0.44809,2.607,0.58448,0.77915,0.2265,-142.28,-0.48869,0.11518,0.86482,30.332
> view matrix models
> #14.22,0.64774,-0.61616,0.44809,2.8731,0.58448,0.77915,0.2265,-142.85,-0.48869,0.11518,0.86482,30.727,#14.23,0.64774,-0.61616,0.44809,2.8731,0.58448,0.77915,0.2265,-142.85,-0.48869,0.11518,0.86482,30.727
> view matrix models
> #14.22,0.64774,-0.61616,0.44809,2.9582,0.58448,0.77915,0.2265,-142.92,-0.48869,0.11518,0.86482,30.563,#14.23,0.64774,-0.61616,0.44809,2.9582,0.58448,0.77915,0.2265,-142.92,-0.48869,0.11518,0.86482,30.563
> select subtract #14.22
2 models selected
> view matrix models
> #14.23,0.64774,-0.61616,0.44809,-4.8722,0.58448,0.77915,0.2265,-142.88,-0.48869,0.11518,0.86482,-19.774
> view matrix models
> #14.23,0.64774,-0.61616,0.44809,0.84389,0.58448,0.77915,0.2265,-145.51,-0.48869,0.11518,0.86482,-22.861
> view matrix models
> #14.23,0.64774,-0.61616,0.44809,0.91632,0.58448,0.77915,0.2265,-145.75,-0.48869,0.11518,0.86482,-22.497
> select subtract #14.23
Nothing selected
> vop add #14
Opened volume sum as #15, grid size 113,52,230, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> select add #15
2 models selected
> view matrix models
> #15,0.99832,-0.056593,-0.012348,18.948,0.056358,0.99824,-0.018621,-16.276,0.01338,0.017894,0.99975,45.256
> view matrix models
> #15,0.99832,-0.056593,-0.012348,-56.689,0.056358,0.99824,-0.018621,-135.48,0.01338,0.017894,0.99975,41.875
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.48947,-0.83857,0.23918,365.71,0.84983,-0.52021,-0.084721,71.183,0.19547,0.16179,0.96727,-20.576
> show #!14.1-23 target m
> view matrix models
> #15,-0.79276,-0.51937,0.31905,338.18,0.59936,-0.75946,0.25296,122.52,0.11093,0.39176,0.91335,-49.017
> view matrix models
> #15,-0.79242,-0.53344,0.29582,344.82,0.52928,-0.84239,-0.10124,207.92,0.30321,0.076346,0.94986,-18.829
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.79242,-0.53344,0.29582,376.95,0.52928,-0.84239,-0.10124,257.22,0.30321,0.076346,0.94986,9.0682
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.82987,-0.5248,0.18945,398.04,0.49383,-0.84891,-0.18838,278.5,0.25969,-0.062774,0.96365,47.013
> view matrix models
> #15,-0.82728,-0.52615,0.19689,396.75,0.49767,-0.84898,-0.17766,276.18,0.26063,-0.048989,0.96419,43.604
> view matrix models
> #15,-0.81921,-0.52964,0.21997,392.55,0.50956,-0.8482,-0.14456,268.78,0.26314,-0.0063342,0.96474,33.303
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.81921,-0.52964,0.21997,399.6,0.50956,-0.8482,-0.14456,276.39,0.26314,-0.0063342,0.96474,38.106
> view matrix models
> #15,-0.81921,-0.52964,0.21997,410.23,0.50956,-0.8482,-0.14456,250.47,0.26314,-0.0063342,0.96474,32.669
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.82091,-0.53026,0.21198,411.9,0.52453,-0.84691,-0.087224,238.73,0.22578,0.039589,0.97337,27.951
> view matrix models
> #15,-0.82308,-0.53218,0.1983,414.8,0.5449,-0.83842,0.01159,218.09,0.16009,0.11759,0.98007,21.556
> view matrix models
> #15,-0.82252,-0.56868,-0.0077974,453.99,0.56872,-0.8223,-0.019464,214.57,0.0046572,-0.020444,0.99978,79.542
> view matrix models
> #15,-0.7677,-0.63907,-0.047083,465.6,0.64068,-0.76694,-0.036535,190.87,-0.012761,-0.058213,0.99822,91.7
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.7677,-0.63907,-0.047083,464.11,0.64068,-0.76694,-0.036535,200.51,-0.012761,-0.058213,0.99822,107.79
> view matrix models
> #15,-0.7677,-0.63907,-0.047083,462.19,0.64068,-0.76694,-0.036535,196.51,-0.012761,-0.058213,0.99822,109.99
> view matrix models
> #15,-0.7677,-0.63907,-0.047083,460.42,0.64068,-0.76694,-0.036535,196.62,-0.012761,-0.058213,0.99822,107.98
> view matrix models
> #15,-0.7677,-0.63907,-0.047083,459.29,0.64068,-0.76694,-0.036535,195.69,-0.012761,-0.058213,0.99822,110.18
> view matrix models
> #15,-0.7677,-0.63907,-0.047083,456.29,0.64068,-0.76694,-0.036535,191.91,-0.012761,-0.058213,0.99822,108.74
> view matrix models
> #15,-0.7677,-0.63907,-0.047083,457.43,0.64068,-0.76694,-0.036535,198.85,-0.012761,-0.058213,0.99822,108.41
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.2253, correlation about mean = 0.09532, overlap = 19.55
steps = 524, shift = 2.43, angle = 0.804 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.74342240 -0.66590053 -0.06244692 457.89648987
0.66848060 -0.74278055 -0.03755974 188.86467262
-0.02137330 -0.06966731 0.99734129 112.47351216
Axis -0.02404342 -0.03075756 0.99923765
Axis point 193.56584846 184.30270308 0.00000000
Rotation angle (degrees) 138.11023512
Shift along axis 95.56935496
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.757,-0.65341,-0.0018111,449.78,0.65323,-0.75686,0.021338,186.68,-0.015313,0.01497,0.99977,91.979
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.757,-0.65341,-0.0018111,452.77,0.65323,-0.75686,0.021338,191.88,-0.015313,0.01497,0.99977,91.69
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.86997,-0.49306,0.0065201,436.26,0.49305,-0.86963,0.025229,247.37,-0.0067692,0.025163,0.99966,87.761
> view matrix models
> #15,-0.83858,-0.54309,0.042928,436.28,0.54459,-0.83779,0.039197,228.25,0.014677,0.056247,0.99831,76.805
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.83858,-0.54309,0.042928,442.98,0.54459,-0.83779,0.039197,231.45,0.014677,0.056247,0.99831,75.302
> view matrix models
> #15,-0.83858,-0.54309,0.042928,443.73,0.54459,-0.83779,0.039197,231.03,0.014677,0.056247,0.99831,78.037
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.452, correlation about mean = 0.07864, overlap = 74.87
steps = 928, shift = 11.4, angle = 11.2 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.91398218 -0.40535639 0.01796550 436.59737318
0.40448302 -0.91372720 -0.03867920 292.34568719
0.03209443 -0.02808536 0.99909016 88.52911268
Axis 0.01307830 -0.01744243 0.99976233
Axis point 186.62160621 193.01884058 0.00000000
Rotation angle (degrees) 156.10787238
Shift along axis 89.11880368
> view matrix models
> #15,-0.92338,-0.38258,0.03182,435.24,0.38183,-0.92383,-0.02724,291.81,0.039818,-0.013003,0.99912,85.778
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.4558, correlation about mean = 0.1422, overlap = 74.22
steps = 68, shift = 3.86, angle = 3.25 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.91313809 -0.40307345 0.06091479 433.82234527
0.40373171 -0.91487597 -0.00163193 284.38930151
0.05638726 0.02310305 0.99814163 73.24370398
Axis 0.03064306 0.00560894 0.99951465
Axis point 185.85653899 187.44365440 0.00000000
Rotation angle (degrees) 156.19667031
Shift along axis 88.09692359
> view matrix models
> #15,-0.9222,-0.37961,0.073809,428.91,0.38136,-0.92436,0.010857,290.73,0.064104,0.03816,0.99721,69.06
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.4559, correlation about mean = 0.1424, overlap = 74.22
steps = 48, shift = 1.01, angle = 0.00821 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.91317281 -0.40298328 0.06099088 433.80325549
0.40364761 -0.91491321 -0.00155270 284.40904126
0.05642707 0.02320094 0.99813711 73.21560497
Axis 0.03067276 0.00565511 0.99951348
Axis point 185.85167498 187.43901327 0.00000000
Rotation angle (degrees) 156.20209995
Shift along axis 88.09429117
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.92384,-0.38095,0.037355,435.27,0.381,-0.92456,-0.0061744,292.68,0.036889,0.0085281,0.99928,80.027
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.92384,-0.38095,0.037355,434.1,0.381,-0.92456,-0.0061744,290.3,0.036889,0.0085281,0.99928,81.774
> view matrix models
> #15,-0.92384,-0.38095,0.037355,432.32,0.381,-0.92456,-0.0061744,289.9,0.036889,0.0085281,0.99928,82.632
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.4554, correlation about mean = 0.142, overlap = 74.24
steps = 64, shift = 4.61, angle = 2.31 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.91315600 -0.40304106 0.06086059 433.82050821
0.40369676 -0.91489135 -0.00165399 284.38931597
0.05634746 0.02305888 0.99814490 73.25342389
Axis 0.03061824 0.00559159 0.99951551
Axis point 185.85900034 187.44009787 0.00000000
Rotation angle (degrees) 156.19880172
Shift along axis 88.09094359
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.92155,-0.38003,0.079557,428.28,0.38212,-0.92403,0.012417,289.53,0.068794,0.041844,0.99675,66.751
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.92155,-0.38003,0.079557,427.03,0.38212,-0.92403,0.012417,289.29,0.068794,0.041844,0.99675,67.63
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.92591,-0.37605,0.035785,433.52,0.37631,-0.9265,0.0003528,292.76,0.033022,0.013793,0.99936,80.416
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.92591,-0.37605,0.035785,431.17,0.37631,-0.9265,0.0003528,292.26,0.033022,0.013793,0.99936,81.69
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.92645,-0.37531,0.028895,432.14,0.37543,-0.92685,-0.0015706,292.8,0.027371,0.0093929,0.99958,83.731
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.4524, correlation about mean = 0.0793, overlap = 74.86
steps = 72, shift = 4.74, angle = 1.53 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.91402935 -0.40525044 0.01795596 436.58534262
0.40438034 -0.91377657 -0.03858635 292.35563275
0.03204487 -0.02800802 0.99909393 88.51726583
Axis 0.01306253 -0.01739753 0.99976332
Axis point 186.62457527 193.00752914 0.00000000
Rotation angle (degrees) 156.11443570
Shift along axis 89.11295842
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.92342,-0.38247,0.031809,431.96,0.38172,-0.92388,-0.027148,293.09,0.03977,-0.012927,0.99913,85.756
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.4525, correlation about mean = 0.07931, overlap = 74.78
steps = 100, shift = 5.56, angle = 0.00345 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.91404639 -0.40521130 0.01797236 436.59027077
0.40434203 -0.91379521 -0.03854644 292.36321553
0.03204251 -0.02796626 0.99909517 88.52349186
Axis 0.01306608 -0.01737604 0.99976365
Axis point 186.62949085 193.00604048 0.00000000
Rotation angle (degrees) 156.11687138
Shift along axis 89.12697762
> view matrix models
> #15,-0.92344,-0.38243,0.031824,439.07,0.38168,-0.9239,-0.027107,301.71,0.039769,-0.012885,0.99913,83.965
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.91784,-0.39153,0.065328,435.06,0.39556,-0.91589,0.068356,282.92,0.03307,0.088581,0.99552,62.594
> view matrix models
> #15,-0.92046,-0.3898,0.028555,440.68,0.39072,-0.91956,0.041743,288.67,0.0099869,0.04958,0.99872,75.391
> view matrix models
> #15,-0.95201,-0.2997,-0.06201,439.67,0.29772,-0.95384,0.039272,314.47,-0.070918,0.018926,0.9973,97.917
> view matrix models
> #15,-0.95344,-0.29963,-0.034298,435.76,0.30053,-0.95345,-0.024801,323.47,-0.02527,-0.033954,0.9991,101.09
> view matrix models
> #15,-0.96252,-0.26366,0.063485,414.58,0.26528,-0.964,0.018391,326.07,0.056351,0.034543,0.99781,70.189
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.96252,-0.26366,0.063485,414.91,0.26528,-0.964,0.018391,326.83,0.056351,0.034543,0.99781,74.911
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.5359, correlation about mean = 0.03438, overlap = 117.6
steps = 88, shift = 2.21, angle = 3.5 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.96748001 -0.25278105 0.00917386 420.32776737
0.25294636 -0.96694615 0.03214462 326.80354398
0.00074508 0.03341977 0.99944112 83.44272426
Axis 0.00252107 0.01666428 0.99985796
Axis point 189.14852996 189.70994648 0.00000000
Rotation angle (degrees) 165.35083639
Shift along axis 89.93649238
> view matrix models
> #15,-0.97345,-0.22793,0.021256,414.69,0.22866,-0.97254,0.043341,329.91,0.010793,0.047051,0.99883,79.598
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.5359, correlation about mean = 0.0344, overlap = 117.6
steps = 72, shift = 2.59, angle = 0.00626 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.96749560 -0.25272368 0.00911005 420.32811281
0.25288694 -0.96695948 0.03221104 326.80718311
0.00066856 0.03346785 0.99943957 83.44392159
Axis 0.00248538 0.01669326 0.99985757
Axis point 189.15509345 189.70435195 0.00000000
Rotation angle (degrees) 165.35428909
Shift along axis 89.93218906
> view matrix models
> #15,-0.97346,-0.22787,0.02119,413.44,0.2286,-0.97255,0.043406,329.72,0.010717,0.047098,0.99883,78.583
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.5358, correlation about mean = 0.03443, overlap = 117.7
steps = 60, shift = 2.8, angle = 0.0119 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.96747008 -0.25281782 0.00920839 420.33121049
0.25298419 -0.96693922 0.03205535 326.80984984
0.00079979 0.03334217 0.99944367 83.45574154
Axis 0.00254376 0.01662194 0.99985861
Axis point 189.14548668 189.71892891 0.00000000
Rotation angle (degrees) 165.34863674
Shift along axis 89.94537670
> view matrix models
> #15,-0.97344,-0.22797,0.021292,414.5,0.2287,-0.97253,0.043253,328.58,0.010847,0.046973,0.99884,79.679
> view matrix models
> #15,-0.97344,-0.22797,0.021292,414.19,0.2287,-0.97253,0.043253,328.81,0.010847,0.046973,0.99884,79.264
> view matrix models
> #15,-0.97344,-0.22797,0.021292,415.52,0.2287,-0.97253,0.043253,328.51,0.010847,0.046973,0.99884,78.957
> view matrix models
> #15,-0.97344,-0.22797,0.021292,414.36,0.2287,-0.97253,0.043253,327.79,0.010847,0.046973,0.99884,78.658
> view matrix models
> #15,-0.97344,-0.22797,0.021292,414.75,0.2287,-0.97253,0.043253,327.72,0.010847,0.046973,0.99884,78.992
> view matrix models
> #15,-0.97344,-0.22797,0.021292,415.18,0.2287,-0.97253,0.043253,327.47,0.010847,0.046973,0.99884,80.079
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.97089,-0.23819,0.025215,416.45,0.23937,-0.96866,0.066284,321.1,0.0086363,0.07039,0.99748,75.352
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 1147 points
correlation = 0.5361, correlation about mean = 0.03428, overlap = 117.6
steps = 88, shift = 5.12, angle = 1.48 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.96750863 -0.25267637 0.00903840 420.32443390
0.25283732 -0.96696892 0.03231707 326.79945023
0.00057409 0.03355229 0.99943680 83.42730819
Axis 0.00244315 0.01674157 0.99985687
Axis point 189.15990467 189.69330796 0.00000000
Rotation angle (degrees) 165.35714901
Shift along axis 89.91341845
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/Td_DFlaB3_analysis.cxs
> includeMaps true
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> select subtract #15
Nothing selected
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #16-17 id #14
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #16-17 id #14
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> rename #16 id #14
> color #15 #ff4bf9ff models
> hide #!15 models
> show #!15 models
> select add #14.24
2 models selected
> volume #14.28 level 0.055
> volume #14.27 level 0.055
> volume #14.26 level 0.055
> volume #14.25 level 0.055
> volume #14.24 level 0.055
> view matrix models
> #14.24,0.98747,0.046594,0.15079,-43.085,-0.046809,0.9989,-0.0021227,12.14,-0.15073,-0.0049624,0.98856,40.498
> select add #14.25
4 models selected
> select add #14.26
6 models selected
> select add #14.27
8 models selected
> select add #14.28
10 models selected
> select add #15
12 models selected
> select subtract #15
10 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #14.24,0.98747,0.046594,0.15079,-45.129,-0.046809,0.9989,-0.0021227,-14.224,-0.15073,-0.0049624,0.98856,10.228,#14.25,1,0,0,-2.0449,0,1,0,-26.364,0,0,1,-30.271,#14.26,1,0,0,-2.0449,0,1,0,-26.364,0,0,1,-30.271,#14.27,1,0,0,-2.0449,0,1,0,-26.364,0,0,1,-30.271,#14.28,1,0,0,-2.0449,0,1,0,-26.364,0,0,1,-30.271
> view matrix models
> #14.24,0.98747,0.046594,0.15079,-43.32,-0.046809,0.9989,-0.0021227,-17.367,-0.15073,-0.0049624,0.98856,8.0949,#14.25,1,0,0,-0.23512,0,1,0,-29.506,0,0,1,-32.404,#14.26,1,0,0,-0.23512,0,1,0,-29.506,0,0,1,-32.404,#14.27,1,0,0,-0.23512,0,1,0,-29.506,0,0,1,-32.404,#14.28,1,0,0,-0.23512,0,1,0,-29.506,0,0,1,-32.404
> view matrix models
> #14.24,0.98747,0.046594,0.15079,-42.331,-0.046809,0.9989,-0.0021227,-16.425,-0.15073,-0.0049624,0.98856,10.255,#14.25,1,0,0,0.75368,0,1,0,-28.564,0,0,1,-30.243,#14.26,1,0,0,0.75368,0,1,0,-28.564,0,0,1,-30.243,#14.27,1,0,0,0.75368,0,1,0,-28.564,0,0,1,-30.243,#14.28,1,0,0,0.75368,0,1,0,-28.564,0,0,1,-30.243
> fitmap #14.24 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.957, correlation about mean = 0.4796, overlap = 14.6
steps = 48, shift = 1.04, angle = 17.4 degrees
Position of S126_glycan.mrc (#14.24) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.91410280 0.36062560 0.18537853 -97.57065779
-0.34931440 0.93251760 -0.09159877 91.25808112
-0.20590161 0.01897530 0.97838869 22.52446163
Axis 0.13515416 0.47825982 -0.86775624
Axis point 184.74940296 318.65442161 0.00000000
Rotation angle (degrees) 24.14620768
Shift along axis 10.91225129
> fitmap #14.25 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9574, correlation about mean = 0.48, overlap = 14.57
steps = 64, shift = 1.06, angle = 23.2 degrees
Position of S126_glycan.mrc (#14.25) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.91437947 0.36140110 0.18248132 -97.09623443
-0.34898951 0.93206936 -0.09722664 92.64409781
-0.20522306 0.02521797 0.97839028 21.04659493
Axis 0.14959412 0.47366965 -0.86790475
Axis point 188.52688553 317.92152731 0.00000000
Rotation angle (degrees) 24.15811222
Shift along axis 11.09123161
> fitmap #14.26 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9574, correlation about mean = 0.48, overlap = 14.57
steps = 64, shift = 1.06, angle = 23.2 degrees
Position of S126_glycan.mrc (#14.26) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.91437947 0.36140110 0.18248132 -97.09623443
-0.34898951 0.93206936 -0.09722664 92.64409781
-0.20522306 0.02521797 0.97839028 21.04659493
Axis 0.14959412 0.47366965 -0.86790475
Axis point 188.52688553 317.92152731 0.00000000
Rotation angle (degrees) 24.15811222
Shift along axis 11.09123161
> fitmap #14.27 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9574, correlation about mean = 0.48, overlap = 14.57
steps = 64, shift = 1.06, angle = 23.2 degrees
Position of S126_glycan.mrc (#14.27) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.91437947 0.36140110 0.18248132 -97.09623443
-0.34898951 0.93206936 -0.09722664 92.64409781
-0.20522306 0.02521797 0.97839028 21.04659493
Axis 0.14959412 0.47366965 -0.86790475
Axis point 188.52688553 317.92152731 0.00000000
Rotation angle (degrees) 24.15811222
Shift along axis 11.09123161
> fitmap #14.28 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9574, correlation about mean = 0.48, overlap = 14.57
steps = 64, shift = 1.06, angle = 23.2 degrees
Position of S126_glycan.mrc (#14.28) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.91437947 0.36140110 0.18248132 -97.09623443
-0.34898951 0.93206936 -0.09722664 92.64409781
-0.20522306 0.02521797 0.97839028 21.04659493
Axis 0.14959412 0.47366965 -0.86790475
Axis point 188.52688553 317.92152731 0.00000000
Rotation angle (degrees) 24.15811222
Shift along axis 11.09123161
> view matrix models
> #14.24,0.91987,0.33727,0.20023,-98.039,-0.32859,0.9414,-0.076181,82.541,-0.21419,0.0042833,0.97678,26.442,#14.25,0.92014,0.33814,0.19748,-97.619,-0.32825,0.94104,-0.081879,83.922,-0.21352,0.01052,0.97688,24.944,#14.26,0.92014,0.33814,0.19748,-97.619,-0.32825,0.94104,-0.081879,83.922,-0.21352,0.01052,0.97688,24.944,#14.27,0.92014,0.33814,0.19748,-97.619,-0.32825,0.94104,-0.081879,83.922,-0.21352,0.01052,0.97688,24.944,#14.28,0.92014,0.33814,0.19748,-97.619,-0.32825,0.94104,-0.081879,83.922,-0.21352,0.01052,0.97688,24.944
> select subtract #14.24
8 models selected
> view matrix models
> #14.25,0.92014,0.33814,0.19748,-83.308,-0.32825,0.94104,-0.081879,74.951,-0.21352,0.01052,0.97688,69.71,#14.26,0.92014,0.33814,0.19748,-83.308,-0.32825,0.94104,-0.081879,74.951,-0.21352,0.01052,0.97688,69.71,#14.27,0.92014,0.33814,0.19748,-83.308,-0.32825,0.94104,-0.081879,74.951,-0.21352,0.01052,0.97688,69.71,#14.28,0.92014,0.33814,0.19748,-83.308,-0.32825,0.94104,-0.081879,74.951,-0.21352,0.01052,0.97688,69.71
> view matrix models
> #14.25,0.92014,0.33814,0.19748,-86.712,-0.32825,0.94104,-0.081879,78.498,-0.21352,0.01052,0.97688,81.708,#14.26,0.92014,0.33814,0.19748,-86.712,-0.32825,0.94104,-0.081879,78.498,-0.21352,0.01052,0.97688,81.708,#14.27,0.92014,0.33814,0.19748,-86.712,-0.32825,0.94104,-0.081879,78.498,-0.21352,0.01052,0.97688,81.708,#14.28,0.92014,0.33814,0.19748,-86.712,-0.32825,0.94104,-0.081879,78.498,-0.21352,0.01052,0.97688,81.708
> view matrix models
> #14.25,0.92014,0.33814,0.19748,-92.096,-0.32825,0.94104,-0.081879,79.362,-0.21352,0.01052,0.97688,85.654,#14.26,0.92014,0.33814,0.19748,-92.096,-0.32825,0.94104,-0.081879,79.362,-0.21352,0.01052,0.97688,85.654,#14.27,0.92014,0.33814,0.19748,-92.096,-0.32825,0.94104,-0.081879,79.362,-0.21352,0.01052,0.97688,85.654,#14.28,0.92014,0.33814,0.19748,-92.096,-0.32825,0.94104,-0.081879,79.362,-0.21352,0.01052,0.97688,85.654
> view matrix models
> #14.25,0.92014,0.33814,0.19748,-97.288,-0.32825,0.94104,-0.081879,77.797,-0.21352,0.01052,0.97688,77.253,#14.26,0.92014,0.33814,0.19748,-97.288,-0.32825,0.94104,-0.081879,77.797,-0.21352,0.01052,0.97688,77.253,#14.27,0.92014,0.33814,0.19748,-97.288,-0.32825,0.94104,-0.081879,77.797,-0.21352,0.01052,0.97688,77.253,#14.28,0.92014,0.33814,0.19748,-97.288,-0.32825,0.94104,-0.081879,77.797,-0.21352,0.01052,0.97688,77.253
> view matrix models
> #14.25,0.92014,0.33814,0.19748,-97.123,-0.32825,0.94104,-0.081879,79.341,-0.21352,0.01052,0.97688,76.755,#14.26,0.92014,0.33814,0.19748,-97.123,-0.32825,0.94104,-0.081879,79.341,-0.21352,0.01052,0.97688,76.755,#14.27,0.92014,0.33814,0.19748,-97.123,-0.32825,0.94104,-0.081879,79.341,-0.21352,0.01052,0.97688,76.755,#14.28,0.92014,0.33814,0.19748,-97.123,-0.32825,0.94104,-0.081879,79.341,-0.21352,0.01052,0.97688,76.755
> view matrix models
> #14.25,0.92014,0.33814,0.19748,-97.136,-0.32825,0.94104,-0.081879,79.817,-0.21352,0.01052,0.97688,76.785,#14.26,0.92014,0.33814,0.19748,-97.136,-0.32825,0.94104,-0.081879,79.817,-0.21352,0.01052,0.97688,76.785,#14.27,0.92014,0.33814,0.19748,-97.136,-0.32825,0.94104,-0.081879,79.817,-0.21352,0.01052,0.97688,76.785,#14.28,0.92014,0.33814,0.19748,-97.136,-0.32825,0.94104,-0.081879,79.817,-0.21352,0.01052,0.97688,76.785
> view matrix models
> #14.25,0.92014,0.33814,0.19748,-96.886,-0.32825,0.94104,-0.081879,80.369,-0.21352,0.01052,0.97688,76.905,#14.26,0.92014,0.33814,0.19748,-96.886,-0.32825,0.94104,-0.081879,80.369,-0.21352,0.01052,0.97688,76.905,#14.27,0.92014,0.33814,0.19748,-96.886,-0.32825,0.94104,-0.081879,80.369,-0.21352,0.01052,0.97688,76.905,#14.28,0.92014,0.33814,0.19748,-96.886,-0.32825,0.94104,-0.081879,80.369,-0.21352,0.01052,0.97688,76.905
> select subtract #14.25
6 models selected
> view matrix models
> #14.26,0.92014,0.33814,0.19748,-96.972,-0.32825,0.94104,-0.081879,80.842,-0.21352,0.01052,0.97688,129.17,#14.27,0.92014,0.33814,0.19748,-96.972,-0.32825,0.94104,-0.081879,80.842,-0.21352,0.01052,0.97688,129.17,#14.28,0.92014,0.33814,0.19748,-96.972,-0.32825,0.94104,-0.081879,80.842,-0.21352,0.01052,0.97688,129.17
> view matrix models
> #14.26,0.92014,0.33814,0.19748,-98.83,-0.32825,0.94104,-0.081879,80.956,-0.21352,0.01052,0.97688,127.46,#14.27,0.92014,0.33814,0.19748,-98.83,-0.32825,0.94104,-0.081879,80.956,-0.21352,0.01052,0.97688,127.46,#14.28,0.92014,0.33814,0.19748,-98.83,-0.32825,0.94104,-0.081879,80.956,-0.21352,0.01052,0.97688,127.46
> view matrix models
> #14.26,0.92014,0.33814,0.19748,-100.43,-0.32825,0.94104,-0.081879,81.214,-0.21352,0.01052,0.97688,129.53,#14.27,0.92014,0.33814,0.19748,-100.43,-0.32825,0.94104,-0.081879,81.214,-0.21352,0.01052,0.97688,129.53,#14.28,0.92014,0.33814,0.19748,-100.43,-0.32825,0.94104,-0.081879,81.214,-0.21352,0.01052,0.97688,129.53
> view matrix models
> #14.26,0.92014,0.33814,0.19748,-101.41,-0.32825,0.94104,-0.081879,81.677,-0.21352,0.01052,0.97688,129.05,#14.27,0.92014,0.33814,0.19748,-101.41,-0.32825,0.94104,-0.081879,81.677,-0.21352,0.01052,0.97688,129.05,#14.28,0.92014,0.33814,0.19748,-101.41,-0.32825,0.94104,-0.081879,81.677,-0.21352,0.01052,0.97688,129.05
> view matrix models
> #14.26,0.92014,0.33814,0.19748,-101.62,-0.32825,0.94104,-0.081879,82.019,-0.21352,0.01052,0.97688,128.71,#14.27,0.92014,0.33814,0.19748,-101.62,-0.32825,0.94104,-0.081879,82.019,-0.21352,0.01052,0.97688,128.71,#14.28,0.92014,0.33814,0.19748,-101.62,-0.32825,0.94104,-0.081879,82.019,-0.21352,0.01052,0.97688,128.71
> select subtract #14.26
4 models selected
> view matrix models
> #14.27,0.92014,0.33814,0.19748,-71.434,-0.32825,0.94104,-0.081879,70.181,-0.21352,0.01052,0.97688,-18.232,#14.28,0.92014,0.33814,0.19748,-71.434,-0.32825,0.94104,-0.081879,70.181,-0.21352,0.01052,0.97688,-18.232
> view matrix models
> #14.27,0.92014,0.33814,0.19748,-97.786,-0.32825,0.94104,-0.081879,84.269,-0.21352,0.01052,0.97688,-33.522,#14.28,0.92014,0.33814,0.19748,-97.786,-0.32825,0.94104,-0.081879,84.269,-0.21352,0.01052,0.97688,-33.522
> view matrix models
> #14.27,0.92014,0.33814,0.19748,-99.379,-0.32825,0.94104,-0.081879,85.866,-0.21352,0.01052,0.97688,-29.348,#14.28,0.92014,0.33814,0.19748,-99.379,-0.32825,0.94104,-0.081879,85.866,-0.21352,0.01052,0.97688,-29.348
> view matrix models
> #14.27,0.92014,0.33814,0.19748,-99.593,-0.32825,0.94104,-0.081879,86.139,-0.21352,0.01052,0.97688,-29.461,#14.28,0.92014,0.33814,0.19748,-99.593,-0.32825,0.94104,-0.081879,86.139,-0.21352,0.01052,0.97688,-29.461
> view matrix models
> #14.27,0.92014,0.33814,0.19748,-99.593,-0.32825,0.94104,-0.081879,86.008,-0.21352,0.01052,0.97688,-29.738,#14.28,0.92014,0.33814,0.19748,-99.593,-0.32825,0.94104,-0.081879,86.008,-0.21352,0.01052,0.97688,-29.738
> select subtract #14.27
2 models selected
> view matrix models
> #14.28,0.92014,0.33814,0.19748,-104.01,-0.32825,0.94104,-0.081879,85.314,-0.21352,0.01052,0.97688,-78.777
> view matrix models
> #14.28,0.92014,0.33814,0.19748,-100.85,-0.32825,0.94104,-0.081879,84.987,-0.21352,0.01052,0.97688,-83.114
> view matrix models
> #14.28,0.92014,0.33814,0.19748,-100.06,-0.32825,0.94104,-0.081879,85.017,-0.21352,0.01052,0.97688,-79.883
> view matrix models
> #14.28,0.92014,0.33814,0.19748,-98.317,-0.32825,0.94104,-0.081879,84.158,-0.21352,0.01052,0.97688,-81.822
> fitmap #14.28 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9657, correlation about mean = 0.6151, overlap = 14.5
steps = 72, shift = 2.14, angle = 39.3 degrees
Position of S126_glycan.mrc (#14.28) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.89945232 0.10256322 -0.42481327 107.81520845
-0.11136382 0.99377109 0.00413810 0.03261153
0.42259156 0.04358681 0.90527154 -224.09250141
Axis 0.04509040 -0.96859492 -0.24452143
Axis point 523.47937495 0.00000000 123.56498029
Rotation angle (degrees) 25.94067347
Shift along axis 59.62526256
> view matrix models
> #14.28,0.90735,0.078091,-0.41307,106.55,-0.084186,0.99644,0.0034572,-7.5095,0.41187,0.031638,0.91069,-221.29
> view matrix models
> #14.28,0.90735,0.078091,-0.41307,107.22,-0.084186,0.99644,0.0034572,-7.8663,0.41187,0.031638,0.91069,-222.32
> view matrix models
> #14.28,0.90735,0.078091,-0.41307,107.71,-0.084186,0.99644,0.0034572,-8.6197,0.41187,0.031638,0.91069,-221.77
> fitmap #14.28 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.9657, correlation about mean = 0.6158, overlap = 14.5
steps = 68, shift = 3.15, angle = 0.0283 degrees
Position of S126_glycan.mrc (#14.28) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.89962939 0.10250803 -0.42445149 107.69135753
-0.11117918 0.99379080 0.00436204 -0.07468544
0.42226313 0.04326595 0.90544017 -223.98254663
Axis 0.04450591 -0.96863814 -0.24445731
Axis point 523.60808326 0.00000000 123.64917774
Rotation angle (degrees) 25.91673195
Shift along axis 59.61941696
> view matrix models
> #14.28,0.90751,0.078032,-0.41271,107.14,-0.084001,0.99646,0.0036919,-8.9694,0.41154,0.031317,0.91085,-220.45
> view matrix models
> #14.28,0.90751,0.078032,-0.41271,107.69,-0.084001,0.99646,0.0036919,-8.92,0.41154,0.031317,0.91085,-221.4
> select add #14
57 models selected
> select subtract #14
Nothing selected
> select add #14
57 models selected
> color #14.24 #ff4bf9ff models
> color #14.25 #ff4bf9ff models
> color #14.26 #ff4bf9ff models
> color #14.27 #ff4bf9ff models
> color #14.28 #ff4bf9ff models
> select subtract #14
Nothing selected
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> select add #16
2 models selected
> volume #16 level 0.055
> volume #17 level 0.055
> select add #17
4 models selected
> view matrix models
> #16,1,0,0,-103.92,0,1,0,62.599,0,0,1,-141.6,#17,1,0,0,-103.92,0,1,0,62.599,0,0,1,-141.6
> view matrix models
> #16,1,0,0,-133.93,0,1,0,-17.371,0,0,1,-118.14,#17,1,0,0,-133.93,0,1,0,-17.371,0,0,1,-118.14
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.62959,-0.66017,-0.40963,192.17,0.64147,0.14424,0.75346,-178.53,-0.43833,-0.73714,0.51429,258.85,#17,0.62959,-0.66017,-0.40963,192.17,0.64147,0.14424,0.75346,-178.53,-0.43833,-0.73714,0.51429,258.85
> view matrix models
> #16,0.77572,-0.59618,-0.20695,94.285,0.33977,0.11822,0.93305,-143.12,-0.5318,-0.7941,0.29427,346.65,#17,0.77572,-0.59618,-0.20695,94.285,0.33977,0.11822,0.93305,-143.12,-0.5318,-0.7941,0.29427,346.65
> view matrix models
> #16,0.807,-0.51804,-0.28354,89.007,0.36218,0.054911,0.93049,-134.84,-0.46646,-0.85359,0.23193,358.15,#17,0.807,-0.51804,-0.28354,89.007,0.36218,0.054911,0.93049,-134.84,-0.46646,-0.85359,0.23193,358.15
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.807,-0.51804,-0.28354,98.311,0.36218,0.054911,0.93049,-124.08,-0.46646,-0.85359,0.23193,365,#17,0.807,-0.51804,-0.28354,98.311,0.36218,0.054911,0.93049,-124.08,-0.46646,-0.85359,0.23193,365
> view matrix models
> #16,0.807,-0.51804,-0.28354,112.93,0.36218,0.054911,0.93049,-142.81,-0.46646,-0.85359,0.23193,353.37,#17,0.807,-0.51804,-0.28354,112.93,0.36218,0.054911,0.93049,-142.81,-0.46646,-0.85359,0.23193,353.37
> view matrix models
> #16,0.807,-0.51804,-0.28354,112.94,0.36218,0.054911,0.93049,-142.72,-0.46646,-0.85359,0.23193,353.38,#17,0.807,-0.51804,-0.28354,112.94,0.36218,0.054911,0.93049,-142.72,-0.46646,-0.85359,0.23193,353.38
> ui mousemode right select
> select #15
2 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.97347,-0.22782,0.021116,414.88,0.22855,-0.97256,0.04351,332.55,0.010624,0.047182,0.99883,79.274
> view matrix models
> #15,-0.97347,-0.22782,0.021116,414.33,0.22855,-0.97256,0.04351,332.84,0.010624,0.047182,0.99883,79.107
> view matrix models
> #15,-0.97347,-0.22782,0.021116,412.67,0.22855,-0.97256,0.04351,332.35,0.010624,0.047182,0.99883,80.16
> view matrix models
> #15,-0.97347,-0.22782,0.021116,413.89,0.22855,-0.97256,0.04351,332.7,0.010624,0.047182,0.99883,79.392
> view matrix models
> #15,-0.97347,-0.22782,0.021116,413.02,0.22855,-0.97256,0.04351,331.38,0.010624,0.047182,0.99883,78.597
> view matrix models
> #15,-0.97347,-0.22782,0.021116,413.86,0.22855,-0.97256,0.04351,330.62,0.010624,0.047182,0.99883,79.163
> select subtract #15
Nothing selected
> select add #16
2 models selected
> view matrix models
> #16,0.807,-0.51804,-0.28354,112.91,0.36218,0.054911,0.93049,-142.47,-0.46646,-0.85359,0.23193,353.41
> select add #17
4 models selected
> view matrix models
> #16,0.807,-0.51804,-0.28354,113.29,0.36218,0.054911,0.93049,-139.41,-0.46646,-0.85359,0.23193,355.55,#17,0.807,-0.51804,-0.28354,113.33,0.36218,0.054911,0.93049,-139.66,-0.46646,-0.85359,0.23193,355.52
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.4891,-0.85669,-0.16389,231.94,0.3742,0.036364,0.92664,-137.57,-0.78788,-0.51454,0.33836,337.83,#17,0.4891,-0.85669,-0.16389,231.96,0.3742,0.036364,0.92664,-137.81,-0.78788,-0.51454,0.33836,337.78
> view matrix models
> #16,0.31446,-0.93584,-0.15912,289.71,0.4315,-0.0083942,0.90208,-136.3,-0.84553,-0.35233,0.40117,303.06,#17,0.31446,-0.93584,-0.15912,289.74,0.4315,-0.0083942,0.90208,-136.55,-0.84553,-0.35233,0.40117,303
> view matrix models
> #16,0.31124,-0.92802,-0.20473,299.9,0.44407,-0.048443,0.89468,-129.28,-0.8402,-0.36938,0.39703,306.3,#17,0.31124,-0.92802,-0.20473,299.94,0.44407,-0.048443,0.89468,-129.52,-0.8402,-0.36938,0.39703,306.24
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.31124,-0.92802,-0.20473,302.39,0.44407,-0.048443,0.89468,-131.46,-0.8402,-0.36938,0.39703,305.41,#17,0.31124,-0.92802,-0.20473,302.43,0.44407,-0.048443,0.89468,-131.71,-0.8402,-0.36938,0.39703,305.35
> view matrix models
> #16,0.31124,-0.92802,-0.20473,301.53,0.44407,-0.048443,0.89468,-129.55,-0.8402,-0.36938,0.39703,305.83,#17,0.31124,-0.92802,-0.20473,301.57,0.44407,-0.048443,0.89468,-129.79,-0.8402,-0.36938,0.39703,305.77
> color #16 #ff4bf9ff models
> color #17 #ff4bf9ff models
> view matrix models
> #16,0.31124,-0.92802,-0.20473,301.79,0.44407,-0.048443,0.89468,-129.48,-0.8402,-0.36938,0.39703,305.63,#17,0.31124,-0.92802,-0.20473,301.83,0.44407,-0.048443,0.89468,-129.72,-0.8402,-0.36938,0.39703,305.58
> select subtract #16
2 models selected
> view matrix models
> #17,0.31124,-0.92802,-0.20473,288.88,0.44407,-0.048443,0.89468,-129.57,-0.8402,-0.36938,0.39703,259.3
> view matrix models
> #17,0.31124,-0.92802,-0.20473,301.36,0.44407,-0.048443,0.89468,-133.29,-0.8402,-0.36938,0.39703,255.81
> view matrix models
> #17,0.31124,-0.92802,-0.20473,301.55,0.44407,-0.048443,0.89468,-132.63,-0.8402,-0.36938,0.39703,257.05
> select subtract #17
Nothing selected
> rename #16-17 id #14
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #16, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> hide #!14 models
> hide #!16 models
> ui tool show "Map Eraser"
> select add #17
1 model selected
> hide #5 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> volume erase #15 center 135.66,184.81,172.76 radius 8.3518
> close #17
> show #!6 models
> show #5 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan.mrc
Opened S126_glycan.mrc as #17, grid size 7,9,8, pixel 1.07,1.07,1.07, shown at
level 1.03, step 1, values float32
> select add #15
2 models selected
> select subtract #15
Nothing selected
> show #!16 models
> select add #16
2 models selected
> volume #16 level 0.055
> volume #17 level 0.055
> ui mousemode right "translate selected models"
> select add #17
4 models selected
> view matrix models
> #16,1,0,0,-118.56,0,1,0,-114.7,0,0,1,-7.439,#17,1,0,0,-118.56,0,1,0,-114.7,0,0,1,-7.439
> view matrix models
> #16,1,0,0,-154.33,0,1,0,-26.302,0,0,1,-69.084,#17,1,0,0,-154.33,0,1,0,-26.302,0,0,1,-69.084
> show #!14 models
> view matrix models
> #16,1,0,0,-117.76,0,1,0,-23.795,0,0,1,-49.628,#17,1,0,0,-117.76,0,1,0,-23.795,0,0,1,-49.628
> view matrix models
> #16,1,0,0,-114.47,0,1,0,-19.701,0,0,1,-70.657,#17,1,0,0,-114.47,0,1,0,-19.701,0,0,1,-70.657
> view matrix models
> #16,1,0,0,-112.27,0,1,0,-18.096,0,0,1,-66.826,#17,1,0,0,-112.27,0,1,0,-18.096,0,0,1,-66.826
> view matrix models
> #16,1,0,0,-109.34,0,1,0,-19.14,0,0,1,-69.421,#17,1,0,0,-109.34,0,1,0,-19.14,0,0,1,-69.421
> fitmap #16 inMap #6
Fit map S126_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 24 points
correlation = 0.976, correlation about mean = 0.7633, overlap = 18.48
steps = 48, shift = 0.86, angle = 67.9 degrees
Position of S126_glycan.mrc (#16) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.62526807 -0.51794520 -0.58375732 232.51679115
-0.07342853 0.70564985 -0.70474573 231.04033206
0.77694793 0.48351944 0.40318836 -214.48526578
Axis 0.63871490 -0.73140469 0.23893608
Axis point 415.40822574 0.00000000 210.11967457
Rotation angle (degrees) 68.46600862
Shift along axis -71.72031203
> color #16 #ff4bf9ff models
> select subtract #16
2 models selected
> view matrix models #17,1,0,0,-66.019,0,1,0,-42.658,0,0,1,-110.42
> view matrix models #17,1,0,0,-102.38,0,1,0,-53.77,0,0,1,-145.47
> view matrix models #17,1,0,0,-107.76,0,1,0,-45.495,0,0,1,-140.64
> view matrix models #17,1,0,0,-112.74,0,1,0,-56.234,0,0,1,-102.37
> view matrix models #17,1,0,0,-96.865,0,1,0,-48.632,0,0,1,-94.196
> ui mousemode right select
> select #15
2 models selected
> select clear
> ui mousemode right "translate selected models"
> select add #17
2 models selected
> select subtract #17
Nothing selected
> select add #17
2 models selected
> fitmap #17 inMap #15
Fit map S126_glycan.mrc in map volume sum using 24 points
correlation = 0.9717, correlation about mean = 0.8212, overlap = 12.15
steps = 84, shift = 2.72, angle = 89.6 degrees
Position of S126_glycan.mrc (#17) relative to volume sum (#15) coordinates:
Matrix rotation and translation
-0.31254849 0.94963414 0.02254862 92.09127935
-0.37177236 -0.10044643 -0.92287368 565.53075429
-0.87412743 -0.29682573 0.38444211 237.17528525
Axis 0.36498954 0.52276728 -0.77038757
Axis point 281.94926999 349.04502824 -0.00000000
Rotation angle (degrees) 120.94910104
Shift along axis 146.53643602
> view matrix models
> #17,0.3705,-0.90783,0.19642,191.37,0.2521,0.30182,0.91943,-191.74,-0.89397,-0.29113,0.34069,295.09
> view matrix models
> #17,0.3705,-0.90783,0.19642,199.1,0.2521,0.30182,0.91943,-187.58,-0.89397,-0.29113,0.34069,293.78
> view matrix models
> #17,0.3705,-0.90783,0.19642,199.75,0.2521,0.30182,0.91943,-188.12,-0.89397,-0.29113,0.34069,293.83
> view matrix models
> #17,0.3705,-0.90783,0.19642,199.41,0.2521,0.30182,0.91943,-187.74,-0.89397,-0.29113,0.34069,293.5
> view matrix models
> #17,0.3705,-0.90783,0.19642,199.31,0.2521,0.30182,0.91943,-188.12,-0.89397,-0.29113,0.34069,292.88
> view matrix models
> #17,0.3705,-0.90783,0.19642,198.71,0.2521,0.30182,0.91943,-188.53,-0.89397,-0.29113,0.34069,293.36
> ui mousemode right "rotate selected models"
> view matrix models
> #17,0.317,-0.93987,0.1271,235.15,0.32577,0.23376,0.91609,-191.56,-0.89072,-0.249,0.38029,274.26
> view matrix models
> #17,0.14258,-0.98853,-0.049755,330.49,0.49756,0.028128,0.86698,-178.9,-0.85563,-0.14837,0.49586,216.9
> view matrix models
> #17,0.064141,-0.96617,-0.24979,393.35,0.57252,-0.16939,0.8022,-140.55,-0.81738,-0.19446,0.54228,205.91
> view matrix models
> #17,0.067074,-0.95636,-0.28439,398.97,0.48176,-0.21856,0.84861,-119.49,-0.87373,-0.19393,0.44608,242.8
> ui mousemode right "translate selected models"
> view matrix models
> #17,0.067074,-0.95636,-0.28439,399.24,0.48176,-0.21856,0.84861,-120.14,-0.87373,-0.19393,0.44608,243.3
> select subtract #17
Nothing selected
> color #17 #ff4bf9ff models
> rename #16-17 id #14
> vop add #14,15
Opened volume sum as #16, grid size 134,140,284, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> hide #!14 models
> hide #!16 models
> show #!16 models
> color #16 #ff4bf9ff models
> close #17
> hide #!16 models
> show #!16 models
> close #14-15
> show #3 models
> hide #3 models
> show #3 models
> show #!30 models
> color #16 #ff1721ff models
> rename #16 S126_glycan_all
> rename #16 id #31
> hide #3 models
> show #3 models
> hide #3 models
> hide #!31 models
> hide #!30 models
> color #5 #a9fab5ff
> color #5 #fff6b6ff
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T137_glycan.mrc
Opened T137_glycan.mrc as #14, grid size 11,10,9, pixel 1.07,1.07,1.07, shown
at level 1.11, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T137_glycan.mrc
Opened T137_glycan.mrc as #15, grid size 11,10,9, pixel 1.07,1.07,1.07, shown
at level 1.11, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T137_glycan.mrc
Opened T137_glycan.mrc as #16, grid size 11,10,9, pixel 1.07,1.07,1.07, shown
at level 1.11, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T137_glycan.mrc
Opened T137_glycan.mrc as #17, grid size 11,10,9, pixel 1.07,1.07,1.07, shown
at level 1.11, step 1, values float32
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_long.pdb
> models #5
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S115_glycan_all.mrc
> models #30
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S126_glycan_all.mrc
> models #31
> close #200
> show #!18 models
> rename #14-18 id #200
> select #5/B-z,1-9,0,AA-Al:137
693 atoms, 594 bonds, 99 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:137
693 atoms, 594 bonds, 99 residues, 1 model selected
> volume #200.1 level 0.055
> volume #200.2 level 0.055
> volume #200.3 level 0.055
> volume #200.4 level 0.055
> ui tool show "Volume Viewer"
> select add #200.2
693 atoms, 594 bonds, 99 residues, 3 models selected
> select add #200.3
693 atoms, 594 bonds, 99 residues, 5 models selected
> select add #200.4
693 atoms, 594 bonds, 99 residues, 7 models selected
> select add #200.5
693 atoms, 594 bonds, 99 residues, 9 models selected
> ui mousemode right select
> select clear
> select add #200.2
2 models selected
> select add #200.3
4 models selected
> select add #200.4
6 models selected
> select add #200.5
8 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #200.2,1,0,0,-0.69868,0,1,0,-0.12505,0,0,1,-0.58385,#200.3,1,0,0,-0.69868,0,1,0,-0.12505,0,0,1,-0.58385,#200.4,1,0,0,-0.69868,0,1,0,-0.12505,0,0,1,-0.58385,#200.5,0.9996,-0.025113,0.012944,1,0.02497,0.99963,0.011123,-6.1084,-0.013218,-0.010796,0.99985,3.385
> select subtract #200.3
6 models selected
> select subtract #200.2
4 models selected
> select subtract #200.5
2 models selected
> view matrix models #200.4,1,0,0,-0.50828,0,1,0,-0.064736,0,0,1,-0.40575
> select subtract #200.4
Nothing selected
> select add #200.1
2 models selected
> select subtract #200.1
Nothing selected
> select add #200.2
2 models selected
> select add #200.3
4 models selected
> select add #200.4
6 models selected
> select add #200.5
8 models selected
> fitmap #200.1 inMap #6
Fit map T137_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 45 points
correlation = 0.9987, correlation about mean = 0.9861, overlap = 38.62
steps = 68, shift = 1.19, angle = 4.16 degrees
Position of T137_glycan.mrc (#200.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99936040 -0.01560370 0.03217620 -5.38616630
0.01719297 0.99861508 -0.04972243 10.00155917
-0.03135579 0.05024383 0.99824465 -2.75174247
Axis 0.81337415 0.51692720 0.26684970
Axis point 0.00000000 62.00605588 198.85097991
Rotation angle (degrees) 3.52313635
Shift along axis 0.05480786
> fitmap #200.1 inMap #6
Fit map T137_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 45 points
correlation = 0.9987, correlation about mean = 0.9855, overlap = 38.61
steps = 40, shift = 0.00424, angle = 0.0432 degrees
Position of T137_glycan.mrc (#200.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99934296 -0.01627076 0.03238688 -5.33256114
0.01786056 0.99861840 -0.04941950 9.82668156
-0.03153804 0.04996547 0.99825288 -2.68122883
Axis 0.80801553 0.51971967 0.27749300
Axis point 0.00000000 60.83662788 196.57031923
Rotation angle (degrees) 3.52588213
Shift along axis 0.05430523
> fitmap #200.1 inMap #6
Fit map T137_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 45 points
correlation = 0.9987, correlation about mean = 0.9857, overlap = 38.62
steps = 44, shift = 0.00161, angle = 0.0256 degrees
Position of T137_glycan.mrc (#200.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99934380 -0.01586022 0.03256413 -5.44013795
0.01745979 0.99862454 -0.04943879 9.88963794
-0.03173523 0.04997491 0.99824615 -2.65358134
Axis 0.80827579 0.52278127 0.27090585
Axis point 0.00000000 60.33287283 197.78725049
Rotation angle (degrees) 3.52576541
Shift along axis 0.05411498
> select #5/B-z,1-9,0,AA-Al:137
693 atoms, 594 bonds, 99 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:137
693 atoms, 594 bonds, 99 residues, 1 model selected
> color sel cyan
> ui mousemode right select
> select clear
> select add #200.2
2 models selected
> select add #200.3
4 models selected
> select add #200.4
6 models selected
> select add #200.5
8 models selected
> ui mousemode right "translate selected models"
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> view matrix models
> #200.2,1,0,0,9.3408,0,1,0,7.5951,0,0,1,51.422,#200.3,1,0,0,9.3408,0,1,0,7.5951,0,0,1,51.422,#200.4,1,0,0,9.5312,0,1,0,7.6554,0,0,1,51.6,#200.5,0.9996,-0.025113,0.012944,11.039,0.02497,0.99963,0.011123,1.6117,-0.013218,-0.010796,0.99985,55.391
> view matrix models
> #200.2,1,0,0,-1.6626,0,1,0,-1.172,0,0,1,49.54,#200.3,1,0,0,-1.6626,0,1,0,-1.172,0,0,1,49.54,#200.4,1,0,0,-1.4722,0,1,0,-1.1117,0,0,1,49.718,#200.5,0.9996,-0.025113,0.012944,0.036119,0.02497,0.99963,0.011123,-7.1553,-0.013218,-0.010796,0.99985,53.508
> hide #!6 models
> show #!6 models
> view matrix models
> #200.2,1,0,0,-0.36764,0,1,0,0.35296,0,0,1,54.896,#200.3,1,0,0,-0.36764,0,1,0,0.35296,0,0,1,54.896,#200.4,1,0,0,-0.17724,0,1,0,0.41327,0,0,1,55.074,#200.5,0.9996,-0.025113,0.012944,1.3311,0.02497,0.99963,0.011123,-5.6304,-0.013218,-0.010796,0.99985,58.865
> view matrix models
> #200.2,1,0,0,-1.841,0,1,0,0.76184,0,0,1,54.148,#200.3,1,0,0,-1.841,0,1,0,0.76184,0,0,1,54.148,#200.4,1,0,0,-1.6506,0,1,0,0.82215,0,0,1,54.326,#200.5,0.9996,-0.025113,0.012944,-0.14228,0.02497,0.99963,0.011123,-5.2215,-0.013218,-0.010796,0.99985,58.117
> view matrix models
> #200.2,1,0,0,-0.48531,0,1,0,0.24738,0,0,1,53.7,#200.3,1,0,0,-0.48531,0,1,0,0.24738,0,0,1,53.7,#200.4,1,0,0,-0.29491,0,1,0,0.30769,0,0,1,53.878,#200.5,0.9996,-0.025113,0.012944,1.2134,0.02497,0.99963,0.011123,-5.736,-0.013218,-0.010796,0.99985,57.669
> view matrix models
> #200.2,1,0,0,-0.25917,0,1,0,0.090836,0,0,1,53.455,#200.3,1,0,0,-0.25917,0,1,0,0.090836,0,0,1,53.455,#200.4,1,0,0,-0.068765,0,1,0,0.15115,0,0,1,53.633,#200.5,0.9996,-0.025113,0.012944,1.4395,0.02497,0.99963,0.011123,-5.8925,-0.013218,-0.010796,0.99985,57.424
> view matrix models
> #200.2,1,0,0,-1.0706,0,1,0,1.2186,0,0,1,53.56,#200.3,1,0,0,-1.0706,0,1,0,1.2186,0,0,1,53.56,#200.4,1,0,0,-0.88024,0,1,0,1.2789,0,0,1,53.738,#200.5,0.9996,-0.025113,0.012944,0.62807,0.02497,0.99963,0.011123,-4.7648,-0.013218,-0.010796,0.99985,57.529
> view matrix models
> #200.2,1,0,0,-1.077,0,1,0,0.84272,0,0,1,53.053,#200.3,1,0,0,-1.077,0,1,0,0.84272,0,0,1,53.053,#200.4,1,0,0,-0.88663,0,1,0,0.90303,0,0,1,53.231,#200.5,0.9996,-0.025113,0.012944,0.62168,0.02497,0.99963,0.011123,-5.1406,-0.013218,-0.010796,0.99985,57.021
> select subtract #200.2
6 models selected
> hide #!6 models
> select add #200.2
8 models selected
> view matrix models
> #200.2,1,0,0,-1.3347,0,1,0,1.4052,0,0,1,51.02,#200.3,1,0,0,-1.3347,0,1,0,1.4052,0,0,1,51.02,#200.4,1,0,0,-1.1443,0,1,0,1.4655,0,0,1,51.198,#200.5,0.9996,-0.025113,0.012944,0.36402,0.02497,0.99963,0.011123,-4.5782,-0.013218,-0.010796,0.99985,54.989
> view matrix models
> #200.2,1,0,0,-1.152,0,1,0,1.0987,0,0,1,50.89,#200.3,1,0,0,-1.152,0,1,0,1.0987,0,0,1,50.89,#200.4,1,0,0,-0.96156,0,1,0,1.159,0,0,1,51.068,#200.5,0.9996,-0.025113,0.012944,0.54675,0.02497,0.99963,0.011123,-4.8847,-0.013218,-0.010796,0.99985,54.858
> show #!6 models
> view matrix models
> #200.2,1,0,0,-0.85005,0,1,0,0.93594,0,0,1,51.046,#200.3,1,0,0,-0.85005,0,1,0,0.93594,0,0,1,51.046,#200.4,1,0,0,-0.65964,0,1,0,0.99625,0,0,1,51.224,#200.5,0.9996,-0.025113,0.012944,0.84867,0.02497,0.99963,0.011123,-5.0474,-0.013218,-0.010796,0.99985,55.015
> view matrix models
> #200.2,1,0,0,-0.89718,0,1,0,1.359,0,0,1,51.265,#200.3,1,0,0,-0.89718,0,1,0,1.359,0,0,1,51.265,#200.4,1,0,0,-0.70678,0,1,0,1.4193,0,0,1,51.443,#200.5,0.9996,-0.025113,0.012944,0.80153,0.02497,0.99963,0.011123,-4.6243,-0.013218,-0.010796,0.99985,55.234
> select subtract #200.2
6 models selected
> hide #!6 models
> show #!6 models
> view matrix models
> #200.3,1,0,0,23.968,0,1,0,8.2773,0,0,1,-44.341,#200.4,1,0,0,24.159,0,1,0,8.3376,0,0,1,-44.163,#200.5,0.9996,-0.025113,0.012944,25.667,0.02497,0.99963,0.011123,2.2939,-0.013218,-0.010796,0.99985,-40.372
> view matrix models
> #200.3,1,0,0,5.2146,0,1,0,0.19354,0,0,1,-64.476,#200.4,1,0,0,5.405,0,1,0,0.25385,0,0,1,-64.298,#200.5,0.9996,-0.025113,0.012944,6.9133,0.02497,0.99963,0.011123,-5.7898,-0.013218,-0.010796,0.99985,-60.507
> view matrix models
> #200.3,1,0,0,4.207,0,1,0,-0.12056,0,0,1,-50.042,#200.4,1,0,0,4.3974,0,1,0,-0.060252,0,0,1,-49.863,#200.5,0.9996,-0.025113,0.012944,5.9057,0.02497,0.99963,0.011123,-6.1039,-0.013218,-0.010796,0.99985,-46.073
> fitmap #200.2 inMap #6
Fit map T137_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 45 points
correlation = 0.9191, correlation about mean = 0.582, overlap = 16.05
steps = 88, shift = 0.429, angle = 39.9 degrees
Position of T137_glycan.mrc (#200.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.84630256 -0.21175959 0.48880452 -68.52018701
0.38132298 0.88155482 -0.27830538 32.02750595
-0.37197414 0.42192295 0.82681090 83.25913495
Axis 0.55654249 0.68414811 0.47138288
Axis point 102.21671179 0.00000000 198.53441880
Rotation angle (degrees) 38.98286467
Shift along axis 23.02409347
> select subtract #200.3
4 models selected
> select subtract #200.4
2 models selected
> select subtract #200.5
Nothing selected
> select add #200.2
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #200.2,0.91939,-0.2442,0.30836,-27.784,0.23128,0.96972,0.078389,-47.214,-0.31817,-0.00075159,0.94803,110.56
> view matrix models
> #200.2,0.95256,0.067577,0.29674,-77.508,-0.053984,0.99709,-0.053775,22.77,-0.29952,0.035205,0.95344,101
> view matrix models
> #200.2,0.9708,-0.012407,0.23956,-53.729,0.055344,0.9833,-0.17335,38.633,-0.23341,0.18155,0.95528,68.51
> view matrix models
> #200.2,0.99192,-0.023338,0.12472,-26.665,0.065002,0.93762,-0.34153,85.903,-0.10897,0.34688,0.93156,30.976
> view matrix models
> #200.2,0.99872,-0.050495,-0.001594,7.8056,0.04777,0.95414,-0.29552,74.472,0.016443,0.29506,0.95534,14.811
> view matrix models
> #200.2,0.99379,0.11111,0.0057556,-18.067,-0.1071,0.9694,-0.22088,76.133,-0.030121,0.21889,0.97528,28.306
> view matrix models
> #200.2,0.99227,0.10594,-0.064657,0.39343,-0.1151,0.98035,-0.16022,60.586,0.046414,0.16642,0.98496,22.835
> ui mousemode right "translate selected models"
> view matrix models
> #200.2,0.99227,0.10594,-0.064657,0.62696,-0.1151,0.98035,-0.16022,60.496,0.046414,0.16642,0.98496,22.99
> select subtract #200.2
Nothing selected
> select add #200.3
2 models selected
> select add #200.4
4 models selected
> select add #200.5
6 models selected
> fitmap #200.3 inMap #6
Fit map T137_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 45 points
correlation = 0.9302, correlation about mean = 0.5878, overlap = 28.64
steps = 56, shift = 2.4, angle = 13.1 degrees
Position of T137_glycan.mrc (#200.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98311964 -0.15593882 0.09570191 4.71498329
0.16424519 0.98265609 -0.08608441 -0.91925115
-0.08061816 0.10034985 0.99168070 -53.10341825
Axis 0.45436064 0.42971128 0.78032341
Axis point -81.90360863 154.74895275 0.00000000
Rotation angle (degrees) 11.83892973
Shift along axis -39.69055024
> select subtract #200.3
4 models selected
> view matrix models
> #200.4,1,0,0,1.2314,0,1,0,-3.086,0,0,1,-102.49,#200.5,0.9996,-0.025113,0.012944,2.7397,0.02497,0.99963,0.011123,-9.1297,-0.013218,-0.010796,0.99985,-98.701
> fitmap #200.4 inMap #6
Fit map T137_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 45 points
correlation = 0.8721, correlation about mean = 0.479, overlap = 20.35
steps = 52, shift = 1.98, angle = 15.3 degrees
Position of T137_glycan.mrc (#200.4) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97085901 -0.19385153 -0.14090555 72.30161765
0.20205201 0.97828010 0.04629280 -39.40091587
0.12887117 -0.07341404 0.98894014 -107.83991297
Axis -0.24241453 -0.54631627 0.80173170
Axis point 439.86383276 203.73312803 0.00000000
Rotation angle (degrees) 14.29445627
Shift along axis -82.46027806
> hide #!6 models
> show #!6 models
> select subtract #200.4
2 models selected
> view matrix models
> #200.5,0.9996,-0.025113,0.012944,-7.935,0.02497,0.99963,0.011123,-21.989,-0.013218,-0.010796,0.99985,-145.01
> view matrix models
> #200.5,0.9996,-0.025113,0.012944,0.12697,0.02497,0.99963,0.011123,-24.204,-0.013218,-0.010796,0.99985,-150.65
> view matrix models
> #200.5,0.9996,-0.025113,0.012944,1.9494,0.02497,0.99963,0.011123,-11.889,-0.013218,-0.010796,0.99985,-151.65
> view matrix models
> #200.5,0.9996,-0.025113,0.012944,3.6938,0.02497,0.99963,0.011123,-12.217,-0.013218,-0.010796,0.99985,-150.7
> view matrix models
> #200.5,0.9996,-0.025113,0.012944,4.1857,0.02497,0.99963,0.011123,-12.459,-0.013218,-0.010796,0.99985,-151.46
> hide #!6 models
> show #!6 models
> ui mousemode right "rotate selected models"
> view matrix models
> #200.5,0.97705,-0.21295,0.0051481,38.181,0.21215,0.97062,-0.11352,-4.3153,0.019176,0.112,0.99352,-173.42
> ui mousemode right "translate selected models"
> view matrix models
> #200.5,0.97705,-0.21295,0.0051481,38.649,0.21215,0.97062,-0.11352,-4.8562,0.019176,0.112,0.99352,-173.22
> select subtract #200.5
Nothing selected
> color #200 #41feffff models
> select add #200
11 models selected
> select subtract #200
Nothing selected
> vop add #200
Opened volume sum as #14, grid size 28,30,205, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> vop add #200
Opened volume sum as #15, grid size 28,30,205, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> vop add #200
Opened volume sum as #16, grid size 28,30,205, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> vop add #200
Opened volume sum as #17, grid size 28,30,205, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> vop add #200
Opened volume sum as #18, grid size 28,30,205, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> select add #14
2 models selected
> select add #15
4 models selected
> select subtract #14
2 models selected
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> view matrix models
> #15,0.9981,-0.040324,0.046673,27.432,0.042097,0.9984,-0.03764,4.3212,-0.045081,0.039533,0.9982,31.709
> view matrix models
> #15,0.9981,-0.040324,0.046673,26.484,0.042097,0.9984,-0.03764,-1.5723,-0.045081,0.039533,0.9982,31.759
> view matrix models
> #15,0.9981,-0.040324,0.046673,28.085,0.042097,0.9984,-0.03764,-9.0132,-0.045081,0.039533,0.9982,33.127
> view matrix models
> #15,0.9981,-0.040324,0.046673,24.082,0.042097,0.9984,-0.03764,-7.8356,-0.045081,0.039533,0.9982,32.735
> view matrix models
> #15,0.9981,-0.040324,0.046673,19.199,0.042097,0.9984,-0.03764,-11.64,-0.045081,0.039533,0.9982,27.797
> hide #!6 models
> show #!6 models
> view matrix models
> #15,0.9981,-0.040324,0.046673,23.295,0.042097,0.9984,-0.03764,-13.436,-0.045081,0.039533,0.9982,29.761
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.7737, correlation about mean = 0.4669, overlap = 93.26
steps = 88, shift = 4.77, angle = 2 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99980687 0.00367200 0.01930670 23.47037262
-0.00220358 0.99714064 -0.07553609 3.11728110
-0.01952887 0.07547895 0.99695614 22.37846295
Axis 0.96780126 0.24888325 -0.03765448
Axis point 0.00000000 -308.65841502 -21.66938940
Rotation angle (degrees) 4.47474450
Shift along axis 22.64784573
> view matrix models
> #15,0.99921,-0.020434,0.03406,23.811,0.022587,0.99769,-0.064073,-3.2223,-0.032673,0.064792,0.99736,24.039
> view matrix models
> #15,0.99921,-0.020434,0.03406,21.711,0.022587,0.99769,-0.064073,-2.8304,-0.032673,0.064792,0.99736,23.362
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.96866,-0.19949,0.14802,30.373,0.20496,0.97851,-0.02254,-35.087,-0.14034,0.052172,0.98873,42.835
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.96866,-0.19949,0.14802,31.733,0.20496,0.97851,-0.02254,-34.758,-0.14034,0.052172,0.98873,43.221
> view matrix models
> #15,0.96866,-0.19949,0.14802,33.048,0.20496,0.97851,-0.02254,-36.004,-0.14034,0.052172,0.98873,44.226
> view matrix models
> #15,0.96866,-0.19949,0.14802,32.347,0.20496,0.97851,-0.02254,-37.464,-0.14034,0.052172,0.98873,44.005
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5966, correlation about mean = 0.3203, overlap = 51.06
steps = 84, shift = 1.19, angle = 1.21 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97634400 -0.17617395 0.12536003 29.98097645
0.17977239 0.98354526 -0.01790559 -36.79755001
-0.12014276 0.04001828 0.99194972 42.24761920
Axis 0.13277311 0.56274155 0.81590027
Axis point 271.24943754 120.38389697 0.00000000
Rotation angle (degrees) 12.59928320
Shift along axis 17.74300089
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5964, correlation about mean = 0.3201, overlap = 51.07
steps = 48, shift = 0.0166, angle = 0.0386 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97644875 -0.17552394 0.12545595 29.83815609
0.17914381 0.98365657 -0.01808980 -36.68097058
-0.12023037 0.04013842 0.99193426 42.23593208
Axis 0.13374615 0.56432438 0.81464714
Axis point 271.46385744 120.08494073 0.00000000
Rotation angle (degrees) 12.57291166
Shift along axis 17.69815399
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5965, correlation about mean = 0.3202, overlap = 51.05
steps = 64, shift = 0.00987, angle = 0.0355 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97653903 -0.17495606 0.12554638 29.72252607
0.17855842 0.98376557 -0.01794967 -36.64426801
-0.12036781 0.03994591 0.99192536 42.29286911
Axis 0.13324365 0.56595863 0.81359508
Axis point 272.01312032 119.98262262 0.00000000
Rotation angle (degrees) 12.54783107
Shift along axis 17.63046820
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5964, correlation about mean = 0.3202, overlap = 51.04
steps = 24, shift = 0.00925, angle = 0.0329 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97662917 -0.17439798 0.12562166 29.60431879
0.17800052 0.98386648 -0.01796009 -36.57852984
-0.12046274 0.03990107 0.99191564 42.31223290
Axis 0.13341482 0.56741532 0.81255175
Axis point 272.38071104 119.80499213 0.00000000
Rotation angle (degrees) 12.52389810
Shift along axis 17.57531526
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5963, correlation about mean = 0.3202, overlap = 51.03
steps = 24, shift = 0.00731, angle = 0.0329 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97672180 -0.17383881 0.12567659 29.49146182
0.17743840 0.98396817 -0.01795164 -36.51628190
-0.12054107 0.03983361 0.99190883 42.33396855
Axis 0.13349988 0.56883084 0.81154745
Axis point 272.77937006 119.66559211 0.00000000
Rotation angle (degrees) 12.49910239
Shift along axis 17.52154347
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5965, correlation about mean = 0.3203, overlap = 51.07
steps = 48, shift = 0.0172, angle = 0.0526 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97690248 -0.17296543 0.12547712 29.38295443
0.17657515 0.98411972 -0.01815482 -36.35912731
-0.12034435 0.03989163 0.99193039 42.29581028
Axis 0.13460060 0.57002135 0.81052967
Axis point 273.21491580 119.76561182 0.00000000
Rotation angle (degrees) 12.45218473
Shift along axis 17.51149341
> color #15 #41feffff models
> color #14 #41feffff models
> select add #15
3 models selected
> select subtract #15
Nothing selected
> select add #15
3 models selected
> select subtract #15
Nothing selected
> ui mousemode right "rotate selected models"
> select add #15
3 models selected
> view matrix models
> #15,0.97865,-0.19954,0.049224,49.249,0.19925,0.97989,0.010893,-43.976,-0.050408,-0.00085258,0.99873,36.871
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.7793, correlation about mean = 0.48, overlap = 88.75
steps = 104, shift = 5.22, angle = 3.81 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98772024 -0.15366428 0.02821388 47.23721897
0.15519415 0.98581178 -0.06395245 -21.07688735
-0.01798637 0.06754575 0.99755404 23.07471104
Axis 0.38807124 0.13634400 0.91148836
Axis point 186.18626564 200.37294185 0.00000000
Rotation angle (degrees) 9.75440843
Shift along axis 36.49002952
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.7807, correlation about mean = 0.482, overlap = 89.08
steps = 44, shift = 0.0307, angle = 0.667 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98945563 -0.14217094 0.02765844 45.36063587
0.14369881 0.98750528 -0.06468372 -19.47565198
-0.01811671 0.06797615 0.99752245 23.06240752
Axis 0.41656939 0.14373995 0.89766852
Axis point 189.48543143 197.18072768 0.00000000
Rotation angle (degrees) 9.16214837
Shift along axis 36.79882025
> view matrix models
> #15,0.98508,-0.16817,0.036434,49.312,0.16928,0.98512,-0.0298,-28.847,-0.03088,0.035523,0.99889,29.619
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.98508,-0.16817,0.036434,48.893,0.16928,0.98512,-0.0298,-33.05,-0.03088,0.035523,0.99889,29.847
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.7821, correlation about mean = 0.4843, overlap = 89.71
steps = 92, shift = 4.42, angle = 1.93 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99226928 -0.12124455 0.02648457 42.02257735
0.12276327 0.99022020 -0.06628079 -16.43013177
-0.01818937 0.06901972 0.99744946 22.94822754
Axis 0.47883318 0.15810264 0.86355217
Axis point 196.78949225 186.57392239 0.00000000
Rotation angle (degrees) 8.12200580
Shift along axis 37.34114873
> hide #!6 models
> show #!6 models
> view matrix models
> #15,0.98855,-0.14521,0.041009,44.387,0.14733,0.98758,-0.054636,-23.891,-0.032566,0.060053,0.99766,26.203
> hide #!6 models
> view matrix models
> #15,0.98855,-0.14521,0.041009,42.325,0.14733,0.98758,-0.054636,-23.402,-0.032566,0.060053,0.99766,24.152
> view matrix models
> #15,0.98855,-0.14521,0.041009,40.183,0.14733,0.98758,-0.054636,-22.844,-0.032566,0.060053,0.99766,24.453
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.98946,-0.14415,0.013692,45.246,0.1447,0.98784,-0.056783,-22.075,-0.0053405,0.058165,0.99829,20.585
> view matrix models
> #15,0.98902,-0.14478,0.029785,42.251,0.14626,0.98769,-0.055527,-22.527,-0.021379,0.059274,0.99801,22.846
> view matrix models
> #15,0.98794,-0.14564,0.052598,38.067,0.14843,0.98746,-0.053704,-23.173,-0.044117,0.060863,0.99717,26.137
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.98794,-0.14564,0.052598,39.594,0.14843,0.98746,-0.053704,-22.974,-0.044117,0.060863,0.99717,25.307
> show #!6 models
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6756, correlation about mean = 0.3542, overlap = 65.7
steps = 56, shift = 1.72, angle = 0.958 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99033396 -0.13432545 0.03457336 39.87526453
0.13660799 0.98774988 -0.07542172 -18.72199707
-0.02401878 0.07941568 0.99655218 21.00475509
Axis 0.48766152 0.18453636 0.85330685
Axis point 197.16881718 159.54349185 0.00000000
Rotation angle (degrees) 9.13463874
Shift along axis 33.91424414
> select subtract #15
Nothing selected
> select add #16
2 models selected
> view matrix models
> #16,0.9981,-0.040324,0.046673,141.53,0.042097,0.9984,-0.03764,-14.326,-0.045081,0.039533,0.9982,-1.9975
> hide #!6 models
> show #!6 models
> color #16 #41feffff models
> view matrix models
> #16,0.9981,-0.040324,0.046673,58.998,0.042097,0.9984,-0.03764,-24.749,-0.045081,0.039533,0.9982,8.979
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.97679,-0.20056,0.075226,80.248,0.2005,0.97966,0.008438,-54.418,-0.075388,0.0068409,0.99713,18.503
> view matrix models
> #16,0.85454,-0.51199,0.087282,142.01,0.50159,0.85715,0.11708,-102.09,-0.13476,-0.05627,0.98928,38.149
> hide #!6 models
> show #!6 models
> view matrix models
> #16,0.8664,-0.4934,0.076815,139.56,0.48203,0.86657,0.12925,-102.98,-0.13033,-0.074952,0.98863,40.384
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.8664,-0.4934,0.076815,139.2,0.48203,0.86657,0.12925,-103.88,-0.13033,-0.074952,0.98863,34.657
> hide #!6 models
> show #!6 models
> view matrix models
> #16,0.8664,-0.4934,0.076815,138.37,0.48203,0.86657,0.12925,-102.99,-0.13033,-0.074952,0.98863,41.432
> hide #!6 models
> show #!6 models
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.86734,-0.49434,0.057768,142.1,0.4848,0.8654,0.12671,-102.73,-0.11263,-0.081891,0.99026,39.523
> view matrix models
> #16,0.99173,0.019545,0.12687,34.183,-0.0084993,0.99617,-0.087028,-7.2799,-0.12809,0.08523,0.98809,17.517
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.99173,0.019545,0.12687,2.6137,-0.0084993,0.99617,-0.087028,-15.965,-0.12809,0.08523,0.98809,-9.9555
> view matrix models
> #16,0.99173,0.019545,0.12687,-2.7885,-0.0084993,0.99617,-0.087028,-1.8236,-0.12809,0.08523,0.98809,-4.5294
> view matrix models
> #16,0.99173,0.019545,0.12687,-1.58,-0.0084993,0.99617,-0.087028,-3.0667,-0.12809,0.08523,0.98809,-11.239
> fitmap #15 inMap #14
Fit map volume sum in map volume sum using 427 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to volume sum (#14) coordinates:
Matrix rotation and translation
0.99283149 -0.11951168 0.00160801 44.03531058
0.11951284 0.99249049 -0.02606371 -28.10866951
0.00151898 0.02606905 0.99965899 26.50702461
Axis 0.21309667 0.00036392 0.97703105
Axis point 253.54574167 290.36055413 0.00000000
Rotation angle (degrees) 7.02612300
Shift along axis 35.27173484
> fitmap #15 inMap #14
Fit map volume sum in map volume sum using 427 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to volume sum (#14) coordinates:
Matrix rotation and translation
0.99283149 -0.11951168 0.00160801 44.03531058
0.11951284 0.99249049 -0.02606371 -28.10866951
0.00151898 0.02606905 0.99965899 26.50702461
Axis 0.21309667 0.00036392 0.97703105
Axis point 253.54574167 290.36055413 0.00000000
Rotation angle (degrees) 7.02612300
Shift along axis 35.27173484
> fitmap #15 inMap #14
Fit map volume sum in map volume sum using 427 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to volume sum (#14) coordinates:
Matrix rotation and translation
0.99283149 -0.11951168 0.00160801 44.03531058
0.11951284 0.99249049 -0.02606371 -28.10866951
0.00151898 0.02606905 0.99965899 26.50702461
Axis 0.21309667 0.00036392 0.97703105
Axis point 253.54574167 290.36055413 0.00000000
Rotation angle (degrees) 7.02612300
Shift along axis 35.27173484
> fitmap #16 inMap #15
Fit map volume sum in map volume sum using 427 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#16) relative to volume sum (#15) coordinates:
Matrix rotation and translation
0.98159803 0.17643581 0.07304596 -38.64845236
-0.17420070 0.98405314 -0.03596563 24.46335416
-0.07822673 0.02257913 0.99667987 -39.18978252
Axis 0.15153776 0.39155553 -0.90759053
Axis point 28.70224524 255.79048274 0.00000000
Rotation angle (degrees) 11.13777487
Shift along axis 39.29033739
> fitmap #16 inMap #15
Fit map volume sum in map volume sum using 427 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#16) relative to volume sum (#15) coordinates:
Matrix rotation and translation
0.98159803 0.17643581 0.07304596 -38.64845236
-0.17420070 0.98405314 -0.03596563 24.46335416
-0.07822673 0.02257913 0.99667987 -39.18978252
Axis 0.15153776 0.39155553 -0.90759053
Axis point 28.70224524 255.79048274 0.00000000
Rotation angle (degrees) 11.13777487
Shift along axis 39.29033739
> view matrix models
> #16,0.99173,0.019545,0.12687,-9.5292,-0.0084993,0.99617,-0.087028,-1.0365,-0.12809,0.08523,0.98809,-13.803
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.9996,-0.00069114,0.028374,11.602,0.0022909,0.99841,-0.056386,-8.9667,-0.02829,0.056428,0.99801,-26.236
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.9996,-0.00069114,0.028374,18.868,0.0022909,0.99841,-0.056386,-11.179,-0.02829,0.056428,0.99801,-26.6
> view matrix models
> #16,0.9996,-0.00069114,0.028374,19.776,0.0022909,0.99841,-0.056386,-6.0598,-0.02829,0.056428,0.99801,-23.093
> fitmap #16 inMap #15
Fit map volume sum in map volume sum using 427 points
correlation = 0.7896, correlation about mean = 0.5779, overlap = 80.64
steps = 104, shift = 4.81, angle = 1.4 degrees
Position of volume sum (#16) relative to volume sum (#15) coordinates:
Matrix rotation and translation
0.99036813 0.13835916 -0.00526411 -15.15584351
-0.13830514 0.99034386 0.00952542 15.59706589
0.00653121 -0.00870562 0.99994077 -51.15429978
Axis -0.06569385 -0.04250333 -0.99693419
Axis point 122.00819764 93.66154877 0.00000000
Rotation angle (degrees) 7.97595745
Shift along axis 51.33018908
> fitmap #16 inMap #15
Fit map volume sum in map volume sum using 427 points
correlation = 0.792, correlation about mean = 0.5814, overlap = 81.14
steps = 60, shift = 0.02, angle = 0.587 degrees
Position of volume sum (#16) relative to volume sum (#15) coordinates:
Matrix rotation and translation
0.99173250 0.12824265 -0.00452543 -13.97692275
-0.12819229 0.99169825 0.01006540 13.78563127
0.00577867 -0.00940206 0.99993910 -50.92862281
Axis -0.07563730 -0.04003471 -0.99633138
Axis point 117.95013491 86.36664037 0.00000000
Rotation angle (degrees) 7.39387511
Shift along axis 51.24705798
> fitmap #16 inMap #15
Fit map volume sum in map volume sum using 427 points
correlation = 0.7955, correlation about mean = 0.5867, overlap = 81.74
steps = 96, shift = 0.0128, angle = 0.928 degrees
Position of volume sum (#16) relative to volume sum (#15) coordinates:
Matrix rotation and translation
0.99367633 0.11223645 -0.00321450 -12.11998103
-0.11219603 0.99362751 0.01078965 10.98307232
0.00440501 -0.01036076 0.99993662 -50.58151283
Axis -0.09377027 -0.03378105 -0.99502059
Axis point 109.21773704 71.45125323 0.00000000
Rotation angle (degrees) 6.47546896
Shift along axis 51.09512100
> view matrix models
> #16,0.99791,-0.046906,0.044434,50.09,0.04926,0.99735,-0.053469,-7.0956,-0.041808,0.055546,0.99758,-20.67
> hide #!6 models
> show #!6 models
> view matrix models
> #16,0.99791,-0.046906,0.044434,58.69,0.04926,0.99735,-0.053469,-3.4531,-0.041808,0.055546,0.99758,4.6812
> hide #!6 models
> show #!6 models
> view matrix models
> #16,0.99791,-0.046906,0.044434,59.338,0.04926,0.99735,-0.053469,-6.2948,-0.041808,0.055546,0.99758,3.0705
> view matrix models
> #16,0.99791,-0.046906,0.044434,58.747,0.04926,0.99735,-0.053469,-6.8318,-0.041808,0.055546,0.99758,-0.52267
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> view matrix models
> #16,0.99791,-0.046906,0.044434,56.156,0.04926,0.99735,-0.053469,-6.7818,-0.041808,0.055546,0.99758,2.702
> view matrix models
> #16,0.99791,-0.046906,0.044434,56.268,0.04926,0.99735,-0.053469,-8.3255,-0.041808,0.055546,0.99758,1.9518
> view matrix models
> #16,0.99791,-0.046906,0.044434,56.22,0.04926,0.99735,-0.053469,-8.0829,-0.041808,0.055546,0.99758,2.5332
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.94248,-0.32928,0.057507,103.61,0.33166,0.94263,-0.038148,-44.729,-0.041647,0.055026,0.99762,2.5791
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.94248,-0.32928,0.057507,105.25,0.33166,0.94263,-0.038148,-44.75,-0.041647,0.055026,0.99762,3.0136
> view matrix models
> #16,0.94248,-0.32928,0.057507,105.21,0.33166,0.94263,-0.038148,-44.505,-0.041647,0.055026,0.99762,4.0334
> view matrix models
> #16,0.94248,-0.32928,0.057507,105.22,0.33166,0.94263,-0.038148,-45.769,-0.041647,0.055026,0.99762,3.829
> view matrix models
> #16,0.94248,-0.32928,0.057507,105.05,0.33166,0.94263,-0.038148,-45.739,-0.041647,0.055026,0.99762,4.2194
> select subtract #16
Nothing selected
> select add #17
2 models selected
> view matrix models
> #17,0.9981,-0.040324,0.046673,117.49,0.042097,0.9984,-0.03764,21.195,-0.045081,0.039533,0.9982,7.0876
> hide #!17 models
> show #!17 models
> color #17 #41feffff models
> view matrix models
> #17,0.9981,-0.040324,0.046673,76.59,0.042097,0.9984,-0.03764,10.975,-0.045081,0.039533,0.9982,38.965
> view matrix models
> #17,0.9981,-0.040324,0.046673,84.164,0.042097,0.9984,-0.03764,20.672,-0.045081,0.039533,0.9982,4.5538
> view matrix models
> #17,0.9981,-0.040324,0.046673,75.274,0.042097,0.9984,-0.03764,14.899,-0.045081,0.039533,0.9982,-13.727
> view matrix models
> #17,0.9981,-0.040324,0.046673,78.866,0.042097,0.9984,-0.03764,9.4335,-0.045081,0.039533,0.9982,-16.695
> view matrix models
> #17,0.9981,-0.040324,0.046673,82.62,0.042097,0.9984,-0.03764,2.453,-0.045081,0.039533,0.9982,-14.784
> hide #!6 models
> show #!6 models
> view matrix models
> #17,0.9981,-0.040324,0.046673,84.271,0.042097,0.9984,-0.03764,3.8553,-0.045081,0.039533,0.9982,-17.44
> view matrix models
> #17,0.9981,-0.040324,0.046673,84.432,0.042097,0.9984,-0.03764,5.4001,-0.045081,0.039533,0.9982,-16.923
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6779, correlation about mean = 0.3314, overlap = 66.33
steps = 92, shift = 5.37, angle = 2.18 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99827306 -0.02505772 0.05313206 80.54172221
0.02924601 0.99639973 -0.07957544 19.10461279
-0.05094679 0.08099192 0.99541184 -21.02641655
Axis 0.80725673 0.52325923 0.27301348
Axis point 0.00000000 479.69123104 -237.14194590
Rotation angle (degrees) 5.70764225
Shift along axis 69.27401681
> ui mousemode right "rotate selected models"
> view matrix models
> #17,0.55853,-0.82635,0.072077,260.36,0.82935,0.55789,-0.030535,-42.075,-0.014978,0.076832,0.99693,-26.867
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6428, correlation about mean = 0.1466, overlap = 68.07
steps = 64, shift = 4.5, angle = 0.701 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.58385146 -0.80988902 0.05654417 259.63656466
0.81183370 0.58298033 -0.03255729 -42.14947767
-0.00659634 0.06491308 0.99786912 -22.78196689
Axis 0.05994946 0.03883477 0.99744570
Axis point 171.29580390 233.21634324 0.00000000
Rotation angle (degrees) 54.38396843
Shift along axis -8.79556701
> ui mousemode right "translate selected models"
> view matrix models
> #17,0.56312,-0.82339,0.070214,266.74,0.82606,0.56322,-0.020169,-43.189,-0.022939,0.069359,0.99733,-22.504
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> view matrix models
> #17,0.56312,-0.82339,0.070214,264.59,0.82606,0.56322,-0.020169,-49.313,-0.022939,0.069359,0.99733,-25.649
> view matrix models
> #17,0.56312,-0.82339,0.070214,262.28,0.82606,0.56322,-0.020169,-48.254,-0.022939,0.069359,0.99733,-22.681
> hide #!6 models
> show #!6 models
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6079, correlation about mean = 0.2462, overlap = 57.67
steps = 92, shift = 2.97, angle = 3.45 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.59413714 -0.79639650 0.11293219 245.04833396
0.80379744 0.59310557 -0.04621106 -44.12684983
-0.03017839 0.11823031 0.99252751 -29.08149904
Axis 0.10182290 0.08861477 0.99084788
Axis point 167.17653592 223.49315763 0.00000000
Rotation angle (degrees) 53.85114459
Shift along axis -7.77410034
> ui mousemode right "rotate selected models"
> view matrix models
> #17,0.5642,-0.82049,0.092094,257.2,0.82352,0.56723,0.0084412,-52.029,-0.059164,0.071079,0.99571,-19.303
> ui mousemode right "translate selected models"
> view matrix models
> #17,0.5642,-0.82049,0.092094,255.33,0.82352,0.56723,0.0084412,-54.34,-0.059164,0.071079,0.99571,-18.486
> hide #!6 models
> show #!6 models
> view matrix models
> #17,0.5642,-0.82049,0.092094,256.04,0.82352,0.56723,0.0084412,-53.88,-0.059164,0.071079,0.99571,-20.098
> ui mousemode right "rotate selected models"
> view matrix models
> #17,0.47328,-0.88046,0.02823,290.87,0.87541,0.47366,0.096478,-64.964,-0.098317,-0.020949,0.99493,-0.54976
> view matrix models
> #17,0.47316,-0.88096,-0.0059469,297.66,0.87947,0.47194,0.061682,-58.491,-0.051532,-0.034415,0.99808,-6.0889
> view matrix models
> #17,0.35244,-0.92989,0.10532,300.93,0.93578,0.35134,-0.029514,-31.107,-0.0095568,0.10896,0.994,-32.696
> ui mousemode right "translate selected models"
> view matrix models
> #17,0.35244,-0.92989,0.10532,303.08,0.93578,0.35134,-0.029514,-30.866,-0.0095568,0.10896,0.994,-33.21
> view matrix models
> #17,0.35244,-0.92989,0.10532,303.74,0.93578,0.35134,-0.029514,-32.931,-0.0095568,0.10896,0.994,-34.606
> view matrix models
> #17,0.35244,-0.92989,0.10532,304.36,0.93578,0.35134,-0.029514,-31.68,-0.0095568,0.10896,0.994,-31.807
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6036, correlation about mean = 0.2023, overlap = 57.73
steps = 92, shift = 2.41, angle = 3.38 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.35971743 -0.92408868 0.12908712 296.99541853
0.93182522 0.36290519 0.00126117 -38.23997204
-0.04801182 0.11983297 0.99163246 -26.52052825
Axis 0.06347148 0.09480106 0.99347075
Axis point 176.53667768 199.83794204 0.00000000
Rotation angle (degrees) 69.07610729
Shift along axis -11.12181892
> hide #!6 models
> ui mousemode right "rotate selected models"
> view matrix models
> #17,0.31204,-0.94344,0.11201,310.33,0.95,0.31124,-0.024939,-26.218,-0.011333,0.11419,0.99339,-32.328
> view matrix models
> #17,0.34232,-0.93891,0.035563,320.17,0.9394,0.34275,0.0066567,-35.502,-0.018439,0.031129,0.99935,-20.16
> view matrix models
> #17,0.35137,-0.93504,0.047297,315.96,0.93545,0.35269,0.023137,-39.618,-0.038316,0.036114,0.99861,-17.816
> view matrix models
> #17,0.3323,-0.93927,0.08572,311.87,0.94255,0.33401,0.0060396,-34.554,-0.034305,0.078788,0.9963,-24.267
> ui mousemode right "translate selected models"
> view matrix models
> #17,0.3323,-0.93927,0.08572,310.88,0.94255,0.33401,0.0060396,-35.654,-0.034305,0.078788,0.9963,-26.296
> ui mousemode right "rotate selected models"
> view matrix models
> #17,0.33382,-0.93782,0.095172,308.59,0.94163,0.33642,0.012249,-37.091,-0.043506,0.085527,0.99539,-25.753
> ui mousemode right "translate selected models"
> view matrix models
> #17,0.33382,-0.93782,0.095172,308.28,0.94163,0.33642,0.012249,-37.09,-0.043506,0.085527,0.99539,-24.758
> show #!6 models
> view matrix models
> #17,0.33382,-0.93782,0.095172,308.85,0.94163,0.33642,0.012249,-37.494,-0.043506,0.085527,0.99539,-25.955
> view matrix models
> #17,0.33382,-0.93782,0.095172,310.18,0.94163,0.33642,0.012249,-36.688,-0.043506,0.085527,0.99539,-26.116
> view matrix models
> #17,0.33382,-0.93782,0.095172,309.68,0.94163,0.33642,0.012249,-37.32,-0.043506,0.085527,0.99539,-24.794
> select subtract #17
Nothing selected
> select add #18
2 models selected
> view matrix models
> #18,0.9981,-0.040324,0.046673,56.032,0.042097,0.9984,-0.03764,-79.826,-0.045081,0.039533,0.9982,2.1794
> view matrix models
> #18,0.9981,-0.040324,0.046673,88.209,0.042097,0.9984,-0.03764,-0.11577,-0.045081,0.039533,0.9982,-19.991
> fitmap #18 inMap #17
Fit map volume sum in map volume sum using 427 points
correlation = 0.6876, correlation about mean = 0.4538, overlap = 68.28
steps = 116, shift = 8.37, angle = 3.5 degrees
Position of volume sum (#18) relative to volume sum (#17) coordinates:
Matrix rotation and translation
0.39154326 0.91419851 -0.10457034 -26.29295519
-0.91969823 0.39241028 -0.01301279 231.14894092
0.02913820 0.10126822 0.99443236 -18.73041655
Axis 0.06203129 -0.07257647 -0.99543195
Axis point 161.38036020 136.18560724 0.00000000
Rotation angle (degrees) 67.09570817
Shift along axis 0.23789528
> fitmap #18 inMap #17
Fit map volume sum in map volume sum using 427 points
correlation = 0.6888, correlation about mean = 0.4544, overlap = 68.42
steps = 48, shift = 0.0213, angle = 0.536 degrees
Position of volume sum (#18) relative to volume sum (#17) coordinates:
Matrix rotation and translation
0.40010780 0.91056403 -0.10386001 -27.15887810
-0.91599386 0.40096976 -0.01336068 229.37025152
0.02947897 0.10048085 0.99450218 -18.68155072
Axis 0.06204056 -0.07266615 -0.99542483
Axis point 161.37959164 136.16214868 0.00000000
Rotation angle (degrees) 66.55991485
Shift along axis 0.24367352
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.99326,-0.085941,0.077754,86.481,0.090607,0.99416,-0.058607,4.5773,-0.072263,0.065257,0.99525,-17.756
> view matrix models
> #18,0.99906,0.031444,0.029853,77.651,-0.029438,0.99742,-0.065412,23.17,-0.031833,0.064472,0.99741,-24.039
> view matrix models
> #18,0.97403,-0.21938,0.055981,113.32,0.22361,0.97088,-0.085932,-6.2827,-0.035499,0.096219,0.99473,-27.666
> fitmap #18 inMap #17
Fit map volume sum in map volume sum using 427 points
correlation = 0.7102, correlation about mean = 0.4721, overlap = 72.62
steps = 52, shift = 0.419, angle = 1.56 degrees
Position of volume sum (#18) relative to volume sum (#17) coordinates:
Matrix rotation and translation
0.54424990 0.83406395 -0.09016314 -39.79007647
-0.83823557 0.54500447 -0.01820088 196.94709575
0.03395862 0.08548378 0.99576069 -17.32056394
Axis 0.06171332 -0.07387752 -0.99535601
Axis point 161.24546338 135.83154065 0.00000000
Rotation angle (degrees) 57.14549954
Shift along axis 0.23458713
> view matrix models
> #18,0.89857,-0.42684,0.10187,146.73,0.43383,0.899,-0.059918,-31.974,-0.066001,0.098033,0.99299,-23.086
> fitmap #18 inMap #17
Fit map volume sum in map volume sum using 427 points
correlation = 0.7558, correlation about mean = 0.519, overlap = 80.03
steps = 48, shift = 0.851, angle = 1.01 degrees
Position of volume sum (#18) relative to volume sum (#17) coordinates:
Matrix rotation and translation
0.72071611 0.68971139 -0.06976037 -48.33265945
-0.69232580 0.72126101 -0.02162287 149.21759615
0.03540189 0.06388085 0.99732941 -14.58660605
Axis 0.06157250 -0.07572891 -0.99522558
Axis point 161.07492116 135.32200177 0.00000000
Rotation angle (degrees) 43.97413959
Shift along axis 0.24091474
> view matrix models
> #18,0.82545,-0.55879,0.079945,182.13,0.56321,0.82479,-0.050135,-42.118,-0.037923,0.086409,0.99554,-26.03
> fitmap #18 inMap #17
Fit map volume sum in map volume sum using 427 points
correlation = 0.7915, correlation about mean = 0.5523, overlap = 85.95
steps = 48, shift = 0.392, angle = 1.16 degrees
Position of volume sum (#18) relative to volume sum (#17) coordinates:
Matrix rotation and translation
0.81493053 0.57687911 -0.05566614 -48.11581512
-0.57862315 0.81530857 -0.02161440 118.02234136
0.03291619 0.04982395 0.99821546 -12.29075973
Axis 0.06152683 -0.07629222 -0.99518538
Axis point 160.89827667 135.05359921 0.00000000
Rotation angle (degrees) 35.48897137
Shift along axis 0.26698433
> fitmap #18 inMap #17
Fit map volume sum in map volume sum using 427 points
correlation = 0.7954, correlation about mean = 0.5564, overlap = 86.68
steps = 44, shift = 0.0326, angle = 0.775 degrees
Position of volume sum (#18) relative to volume sum (#17) coordinates:
Matrix rotation and translation
0.82268105 0.56589746 -0.05436875 -47.86453904
-0.56756946 0.82304424 -0.02151962 115.18248296
0.03256999 0.04856183 0.99828901 -12.06174884
Axis 0.06153140 -0.07633207 -0.99518204
Axis point 160.87921217 135.02068296 0.00000000
Rotation angle (degrees) 34.71377510
Shift along axis 0.26634641
> view matrix models
> #18,0.72793,-0.67416,0.12503,205.35,0.68172,0.73112,-0.026859,-50.288,-0.073305,0.10479,0.99179,-22.81
> fitmap #18 inMap #17
Fit map volume sum in map volume sum using 427 points
correlation = 0.844, correlation about mean = 0.6258, overlap = 95.84
steps = 60, shift = 0.612, angle = 1.83 degrees
Position of volume sum (#18) relative to volume sum (#17) coordinates:
Matrix rotation and translation
0.89591973 0.44236625 -0.04049636 -42.87909765
-0.44335818 0.89612891 -0.01965984 85.29354002
0.02759311 0.03556803 0.99898626 -9.49428411
Axis 0.06205010 -0.07650049 -0.99513691
Axis point 160.84206666 134.81107813 0.00000000
Rotation angle (degrees) 26.42502873
Shift along axis 0.26246269
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.7175,-0.68935,0.099994,256.15,0.69481,0.71846,-0.03251,18.756,-0.049431,0.092802,0.99446,-9.7298
> hide #!6 models
> show #!6 models
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.30234,-0.9481,0.098443,356.07,0.9518,0.30588,0.022729,30.962,-0.051662,0.086826,0.99488,-8.6
> view matrix models
> #18,-0.58567,-0.8072,0.073581,471.35,0.8094,-0.5776,0.10606,166.33,-0.043111,0.12167,0.99163,-14.38
> color #18 #41feffff models
> hide #!6 models
> show #!6 models
> view matrix models
> #18,-0.70743,-0.67017,0.22453,439.5,0.69614,-0.71561,0.0574,213.01,0.12221,0.19691,0.97278,-46.244
> view matrix models
> #18,-0.71475,-0.68329,0.14914,457.3,0.68843,-0.72496,-0.022168,231.13,0.12327,0.086827,0.98857,-33.216
> view matrix models
> #18,-0.72257,-0.68102,0.11876,464.07,0.6913,-0.71145,0.12629,199.61,-0.001517,0.17335,0.98486,-26.842
> view matrix models
> #18,-0.72204,-0.69117,0.030526,482.78,0.69139,-0.71925,0.068264,212.13,-0.025226,0.070395,0.9972,-10.531
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.72204,-0.69117,0.030526,490.01,0.69139,-0.71925,0.068264,183.63,-0.025226,0.070395,0.9972,-11.669
> view matrix models
> #18,-0.72204,-0.69117,0.030526,465.59,0.69139,-0.71925,0.068264,167.28,-0.025226,0.070395,0.9972,-4.6726
> view matrix models
> #18,-0.72204,-0.69117,0.030526,466.98,0.69139,-0.71925,0.068264,170.35,-0.025226,0.070395,0.9972,1.3071
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.70413229 -0.70981224 0.01908558 469.50108267
0.70955746 -0.70235116 0.05684202 164.54948046
-0.02694237 0.05356660 0.99820070 5.31563464
Axis -0.00230644 0.03241132 0.99947195
Axis point 200.52198680 180.05767415 0.00000000
Rotation angle (degrees) 134.76021910
Shift along axis 9.56321828
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.70413229 -0.70981224 0.01908558 469.50108267
0.70955746 -0.70235116 0.05684202 164.54948046
-0.02694237 0.05356660 0.99820070 5.31563464
Axis -0.00230644 0.03241132 0.99947195
Axis point 200.52198680 180.05767415 0.00000000
Rotation angle (degrees) 134.76021910
Shift along axis 9.56321828
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.70413229 -0.70981224 0.01908558 469.50108267
0.70955746 -0.70235116 0.05684202 164.54948046
-0.02694237 0.05356660 0.99820070 5.31563464
Axis -0.00230644 0.03241132 0.99947195
Axis point 200.52198680 180.05767415 0.00000000
Rotation angle (degrees) 134.76021910
Shift along axis 9.56321828
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.7096,-0.67447,0.20387,428.7,0.68914,-0.72463,0.001342,184.59,0.14682,0.14144,0.979,-31.061
> view matrix models
> #18,-0.84929,-0.45775,0.26302,405.7,0.44603,-0.88867,-0.10639,265.89,0.28244,0.026965,0.95891,-30.237
> view matrix models
> #18,-0.96681,-0.25491,0.017118,441.26,0.25385,-0.96603,-0.048336,294.36,0.028858,-0.042386,0.99868,9.7014
> view matrix models
> #18,-0.96628,-0.25698,-0.016431,448.07,0.25749,-0.96495,-0.050744,294.13,-0.0028147,-0.053263,0.99858,16.012
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.96628,-0.25698,-0.016431,436.89,0.25749,-0.96495,-0.050744,293.13,-0.0028147,-0.053263,0.99858,16.53
> view matrix models
> #18,-0.96628,-0.25698,-0.016431,440.3,0.25749,-0.96495,-0.050744,299.39,-0.0028147,-0.053263,0.99858,17.545
> view matrix models
> #18,-0.96628,-0.25698,-0.016431,437.8,0.25749,-0.96495,-0.050744,303.09,-0.0028147,-0.053263,0.99858,22.692
> view matrix models
> #18,-0.96628,-0.25698,-0.016431,439.62,0.25749,-0.96495,-0.050744,309.89,-0.0028147,-0.053263,0.99858,21.357
> view matrix models
> #18,-0.96628,-0.25698,-0.016431,434.41,0.25749,-0.96495,-0.050744,311.84,-0.0028147,-0.053263,0.99858,25.043
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.96396,-0.26593,-0.0084536,433.82,0.2659,-0.96399,0.0045149,299.63,-0.0093498,0.0021043,0.99995,17.55
> hide #!6 models
> show #!6 models
> view matrix models
> #18,-0.96301,-0.2694,-0.0050939,433.54,0.26918,-0.96272,0.026786,294.59,-0.01212,0.024424,0.99963,14.723
> hide #!6 models
> show #!6 models
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.96301,-0.2694,-0.0050939,433.38,0.26918,-0.96272,0.026786,286.47,-0.01212,0.024424,0.99963,8.3243
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6055, correlation about mean = 0.216, overlap = 57.32
steps = 92, shift = 2.16, angle = 0.891 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.95331189 -0.30071918 -0.02764748 439.41258374
0.30005838 -0.95357577 0.02565494 279.05932832
-0.03407889 0.01616128 0.99928842 14.93585147
Axis -0.01579941 0.01070320 0.99981789
Axis point 198.37340138 173.25431540 0.00000000
Rotation angle (degrees) 162.51575771
Shift along axis 10.97749941
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6053, correlation about mean = 0.2158, overlap = 57.33
steps = 64, shift = 0.0167, angle = 0.361 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.95142325 -0.30669316 -0.02707531 439.92780514
0.30603077 -0.95166584 0.02602420 277.81740803
-0.03374809 0.01647413 0.99929454 14.84539182
Axis -0.01558344 0.01088837 0.99981928
Axis point 198.27857275 173.37847372 0.00000000
Rotation angle (degrees) 162.15654533
Shift along axis 11.01210072
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6049, correlation about mean = 0.2153, overlap = 57.4
steps = 84, shift = 0.0163, angle = 0.593 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.94824715 -0.31647156 -0.02594349 440.70986354
0.31581743 -0.94845229 0.02641121 275.80283724
-0.03296455 0.01685093 0.99931441 14.66811690
Axis -0.01511746 0.01110224 0.99982409
Axis point 198.09559813 173.59523162 0.00000000
Rotation angle (degrees) 161.56672108
Shift along axis 11.06515387
> hide #!6 models
> show #!6 models
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.9563,-0.29222,-0.010184,434.83,0.29044,-0.95334,0.082383,271.8,-0.033783,0.075824,0.99655,5.2375
> view matrix models
> #18,-0.86843,-0.4957,-0.010779,452.05,0.49342,-0.86617,0.079309,229.51,-0.04865,0.063556,0.99679,9.2015
> view matrix models
> #18,-0.3712,-0.92414,0.090415,422.09,0.9242,-0.35828,0.13228,80.359,-0.089852,0.13266,0.98708,6.9742
> view matrix models
> #18,-0.36968,-0.92364,0.10109,419.7,0.92759,-0.36056,0.097812,86.949,-0.053894,0.12993,0.99006,1.4804
> view matrix models
> #18,-0.3728,-0.92751,0.027379,435.18,0.92598,-0.36996,0.075473,92.955,-0.059873,0.053489,0.99677,12.353
> view matrix models
> #18,-0.26071,-0.96524,0.018567,425.92,0.96294,-0.25862,0.076574,70.811,-0.069111,0.037842,0.99689,16.009
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.26071,-0.96524,0.018567,432.54,0.96294,-0.25862,0.076574,71.822,-0.069111,0.037842,0.99689,15.071
> view matrix models
> #18,-0.26071,-0.96524,0.018567,431.31,0.96294,-0.25862,0.076574,66.918,-0.069111,0.037842,0.99689,15.619
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6577, correlation about mean = 0.2697, overlap = 75.09
steps = 84, shift = 4.97, angle = 2.47 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.22675251 -0.97304386 0.04205829 419.03050494
0.97087511 -0.22239515 0.08911727 57.76913398
-0.07736144 0.06104090 0.99513272 14.44886246
Axis -0.01441450 0.06131050 0.99801465
Axis point 186.93855921 195.13508791 0.00000000
Rotation angle (degrees) 103.12095305
Shift along axis 11.92191371
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.658, correlation about mean = 0.2699, overlap = 75.09
steps = 44, shift = 0.0238, angle = 0.32 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.22131860 -0.97427772 0.04243769 418.32457058
0.97213602 -0.21696614 0.08875372 56.82562146
-0.07726323 0.06089804 0.99514910 14.43971983
Axis -0.01428284 0.06137596 0.99801252
Axis point 186.83194056 195.33808650 0.00000000
Rotation angle (degrees) 102.80113548
Shift along axis 11.92388436
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6581, correlation about mean = 0.2697, overlap = 75.06
steps = 48, shift = 0.00744, angle = 0.333 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.21567825 -0.97551179 0.04312300 417.54611805
0.97341863 -0.21131031 0.08834072 55.87623943
-0.07706507 0.06102988 0.99515639 14.38702510
Axis -0.01398531 0.06154578 0.99800628
Axis point 186.69009958 195.54684174 0.00000000
Rotation angle (degrees) 102.46927793
Shift along axis 11.95777803
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6584, correlation about mean = 0.2705, overlap = 75.08
steps = 64, shift = 0.011, angle = 0.412 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.20869320 -0.97699423 0.04392468 416.58709459
0.97495226 -0.20430480 0.08790684 54.69324909
-0.07691045 0.06117000 0.99515975 14.34290234
Axis -0.01367008 0.06178089 0.99799612
Axis point 186.52623153 195.80271051 0.00000000
Rotation angle (degrees) 102.05901803
Shift along axis 11.99838069
> hide #!6 models
> view matrix models
> #18,-0.23412,-0.97068,0.054535,419.26,0.96852,-0.22799,0.099905,56.273,-0.084542,0.076208,0.9935,10.731
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.23419,-0.97085,0.051108,419.96,0.97147,-0.23168,0.050615,66.042,-0.037299,0.061504,0.99741,5.1577
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.23419,-0.97085,0.051108,420.22,0.97147,-0.23168,0.050615,67.097,-0.037299,0.061504,0.99741,5.6605
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.23518,-0.9704,0.054888,419.56,0.9705,-0.23136,0.067831,63.821,-0.053124,0.069221,0.99619,7.0981
> view matrix models
> #18,-0.22727,-0.97249,0.051138,419.44,0.97117,-0.22245,0.08574,58.895,-0.072005,0.06915,0.995,10.131
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.22727,-0.97249,0.051138,419.82,0.97117,-0.22245,0.08574,60.127,-0.072005,0.06915,0.995,8.559
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.2312,-0.96992,0.07619,415.11,0.97063,-0.22459,0.086263,60.42,-0.066556,0.093896,0.99335,4.4174
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.2312,-0.96992,0.07619,415.17,0.97063,-0.22459,0.086263,59.198,-0.066556,0.093896,0.99335,4.4155
> show #!6 models
> select subtract #18
Nothing selected
> hide #!6 models
> show #!6 models
> select add #18
2 models selected
> view matrix models
> #18,-0.2312,-0.96992,0.07619,414.64,0.97063,-0.22459,0.086263,58.781,-0.066556,0.093896,0.99335,6.486
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6591, correlation about mean = 0.2712, overlap = 75.11
steps = 76, shift = 3.28, angle = 1.49 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.19735963 -0.97929120 0.04514292 415.01553071
0.97733529 -0.19295051 0.08709654 52.80804720
-0.07658252 0.06130909 0.99517648 14.26083353
Axis -0.01315298 0.06208648 0.99798410
Axis point 186.25147747 196.22768279 0.00000000
Rotation angle (degrees) 101.39471026
Shift along axis 12.05205990
> view matrix models
> #18,-0.22285,-0.97326,0.055773,418.14,0.97119,-0.2167,0.099125,57.381,-0.084388,0.076257,0.99351,12.512
> view matrix models
> #18,-0.22285,-0.97326,0.055773,417.17,0.97119,-0.2167,0.099125,54.199,-0.084388,0.076257,0.99351,13.211
> view matrix models
> #18,-0.22285,-0.97326,0.055773,414.94,0.97119,-0.2167,0.099125,47.65,-0.084388,0.076257,0.99351,12.349
> view matrix models
> #18,-0.22285,-0.97326,0.055773,417.8,0.97119,-0.2167,0.099125,57.337,-0.084388,0.076257,0.99351,10.739
> view matrix models
> #18,-0.22285,-0.97326,0.055773,418.64,0.97119,-0.2167,0.099125,56.515,-0.084388,0.076257,0.99351,10.582
> view matrix models
> #18,-0.22285,-0.97326,0.055773,418.75,0.97119,-0.2167,0.099125,57.003,-0.084388,0.076257,0.99351,10.794
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.23226,-0.9689,0.085404,413.69,0.96965,-0.22375,0.098598,58.377,-0.076422,0.10571,0.99146,5.6636
> view matrix models
> #18,-0.23027,-0.96959,0.08289,413.99,0.97061,-0.22272,0.091155,59.542,-0.069921,0.10144,0.99238,5.1525
> ui mousemode right "rotate selected models"
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.23027,-0.96959,0.08289,413.73,0.97061,-0.22272,0.091155,58.832,-0.069921,0.10144,0.99238,5.1726
> select subtract #18
Nothing selected
> hide #!6 models
> hide #5 models
> ui tool show "Map Eraser"
> select add #21
1 model selected
Can only have one displayed volume when erasing
> select subtract #21
Nothing selected
> hide #21 models
> show #21 models
Can only have one displayed volume when erasing
> hide #!18 models
> show #!18 models
Can only have one displayed volume when erasing
> close #21
> ui tool show "Map Eraser"
Can only have one displayed volume when erasing
> show #!6 models
> show #5 models
> hide #5 models
> show #5 models
> vop add #14-18
Opened volume sum as #21, grid size 137,97,251, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> show #!14 models
> show #!15 models
> show #!16 models
> show #!17 models
> show #!18 models
> hide #!21 models
> select add #18
2 models selected
> select add #17
4 models selected
> select add #16
6 models selected
> select add #15
8 models selected
> select add #14
10 models selected
> show #!21 models
> close #22
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.63241,-0.77464,0.00029696,461.15,0.77301,-0.63105,0.065083,90.292,-0.050228,0.041388,0.99788,2.0834,#15,-0.72045,-0.69323,0.01947,455.08,0.69215,-0.717,0.082751,143.79,-0.043406,0.073094,0.99638,25.159,#16,-0.8307,-0.55668,-0.0057957,435.35,0.55481,-0.82868,0.074052,207.25,-0.046026,0.0583,0.99724,4.4076,#17,-0.95354,0.29334,-0.068708,305.89,-0.29809,-0.95167,0.073937,365.75,-0.043699,0.090983,0.99489,-25.662,#18,-0.63824,0.75971,-0.12446,166.49,-0.76691,-0.64154,0.016756,391.47,-0.067117,0.10614,0.99208,3.9194
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.63241,-0.77464,0.00029696,459.69,0.77301,-0.63105,0.065083,180.99,-0.050228,0.041388,0.99788,1.887,#15,-0.72045,-0.69323,0.01947,453.62,0.69215,-0.717,0.082751,234.49,-0.043406,0.073094,0.99638,24.963,#16,-0.8307,-0.55668,-0.0057957,433.89,0.55481,-0.82868,0.074052,297.94,-0.046026,0.0583,0.99724,4.2111,#17,-0.95354,0.29334,-0.068708,304.44,-0.29809,-0.95167,0.073937,456.45,-0.043699,0.090983,0.99489,-25.858,#18,-0.63824,0.75971,-0.12446,165.03,-0.76691,-0.64154,0.016756,482.16,-0.067117,0.10614,0.99208,3.723
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.83753,-0.54606,-0.018963,469.18,0.54408,-0.83667,0.06286,263.21,-0.050192,0.04233,0.99784,1.7327,#15,-0.89682,-0.44236,-0.0060712,447.14,0.44029,-0.89378,0.085521,312.35,-0.043257,0.074023,0.99632,24.782,#16,-0.96009,-0.27833,-0.027495,409.04,0.27593,-0.95866,0.069552,366.78,-0.045717,0.059189,0.9972,4.0097,#17,-0.81778,0.56886,-0.087395,237.5,-0.57394,-0.81735,0.050312,478.4,-0.042812,0.091303,0.9949,-26.052,#18,-0.37488,0.91886,-0.12312,96.894,-0.92471,-0.38009,-0.021116,460.53,-0.066201,0.10594,0.99217,3.619
> view matrix models
> #14,-0.83682,-0.54616,-0.037918,472.9,0.54342,-0.83704,0.063718,263.2,-0.066539,0.032715,0.99725,6.8924,#15,-0.89615,-0.44304,-0.025016,450.4,0.43959,-0.89404,0.086386,312.34,-0.060638,0.066419,0.99595,29.477,#16,-0.95925,-0.27871,-0.046441,412.65,0.27518,-0.95881,0.070402,366.73,-0.06415,0.054754,0.99644,7.9373,#17,-0.8164,0.56762,-0.10627,241.64,-0.57458,-0.81685,0.051116,478.2,-0.057795,0.10279,0.99302,-25.469,#18,-0.37289,0.91696,-0.14189,100.5,-0.92504,-0.37932,-0.02034,460.25,-0.072474,0.12367,0.98967,1.5475
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.83682,-0.54616,-0.037918,457.05,0.54342,-0.83704,0.063718,251.76,-0.066539,0.032715,0.99725,6.8819,#15,-0.89615,-0.44304,-0.025016,434.55,0.43959,-0.89404,0.086386,300.91,-0.060638,0.066419,0.99595,29.466,#16,-0.95925,-0.27871,-0.046441,396.8,0.27518,-0.95881,0.070402,355.29,-0.06415,0.054754,0.99644,7.9268,#17,-0.8164,0.56762,-0.10627,225.79,-0.57458,-0.81685,0.051116,466.76,-0.057795,0.10279,0.99302,-25.48,#18,-0.37289,0.91696,-0.14189,84.656,-0.92504,-0.37932,-0.02034,448.81,-0.072474,0.12367,0.98967,1.5369
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.93929,-0.3393,-0.05111,448.87,0.33666,-0.94008,0.053867,313.4,-0.066324,0.03339,0.99724,6.7325,#15,-0.97318,-0.22583,-0.043759,415.69,0.22198,-0.97186,0.078892,356.08,-0.060344,0.067063,0.99592,29.307,#16,-0.99684,-0.051023,-0.06094,366.45,0.047468,-0.99716,0.058415,400.33,-0.063748,0.055337,0.99643,7.764,#17,-0.66264,0.7401,-0.11474,174.39,-0.74676,-0.66459,0.0259,469.52,-0.057089,0.10285,0.99306,-25.599,#18,-0.15049,0.97962,-0.133,41.164,-0.986,-0.15851,-0.051829,419.65,-0.071854,0.12334,0.98976,1.5033
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.93929,-0.3393,-0.05111,449.14,0.33666,-0.94008,0.053867,302.08,-0.066324,0.03339,0.99724,6.7573,#15,-0.97318,-0.22583,-0.043759,415.96,0.22198,-0.97186,0.078892,344.76,-0.060344,0.067063,0.99592,29.332,#16,-0.99684,-0.051023,-0.06094,366.72,0.047468,-0.99716,0.058415,389.01,-0.063748,0.055337,0.99643,7.7887,#17,-0.66264,0.7401,-0.11474,174.66,-0.74676,-0.66459,0.0259,458.2,-0.057089,0.10285,0.99306,-25.574,#18,-0.15049,0.97962,-0.133,41.436,-0.986,-0.15851,-0.051829,408.33,-0.071854,0.12334,0.98976,1.528
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.93885,-0.34002,-0.05423,449.75,0.3353,-0.93867,0.080481,296.71,-0.07827,0.057377,0.99528,5.9935,#15,-0.97284,-0.22668,-0.046859,416.53,0.22084,-0.96959,0.10546,339.99,-0.069339,0.092246,0.99332,27.316,#16,-0.9966,-0.051849,-0.064055,367.39,0.046317,-0.9953,0.085012,383.68,-0.068162,0.081756,0.99432,4.4435,#17,-0.66294,0.73933,-0.11787,175.48,-0.74764,-0.66203,0.052449,452.06,-0.039256,0.1229,0.99164,-31.364,#18,-0.15091,0.97912,-0.13617,42.137,-0.98748,-0.15572,-0.025329,403.01,-0.046004,0.13064,0.99036,-3.3653
> view matrix models
> #14,-0.96308,-0.26234,-0.060447,444.37,0.25762,-0.96326,0.075977,317.6,-0.078157,0.0576,0.99528,5.9371,#15,-0.98762,-0.14684,-0.055137,407.74,0.14076,-0.98483,0.10147,358.04,-0.069201,0.092454,0.99331,27.258,#16,-0.99707,0.029497,-0.070609,355.19,-0.035115,-0.9962,0.079691,397.57,-0.06799,0.081937,0.99432,4.387,#17,-0.59978,0.79088,-0.12159,158.35,-0.79922,-0.59951,0.042848,450.07,-0.039007,0.12288,0.99166,-31.398,#18,-0.069892,0.98858,-0.13348,29.449,-0.9965,-0.075335,-0.036164,390.31,-0.045807,0.13049,0.99039,-3.3662
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.96308,-0.26234,-0.060447,434.29,0.25762,-0.96326,0.075977,312.78,-0.078157,0.0576,0.99528,5.9252,#15,-0.98762,-0.14684,-0.055137,397.65,0.14076,-0.98483,0.10147,353.21,-0.069201,0.092454,0.99331,27.246,#16,-0.99707,0.029497,-0.070609,345.11,-0.035115,-0.9962,0.079691,392.74,-0.06799,0.081937,0.99432,4.3751,#17,-0.59978,0.79088,-0.12159,148.26,-0.79922,-0.59951,0.042848,445.25,-0.039007,0.12288,0.99166,-31.409,#18,-0.069892,0.98858,-0.13348,19.365,-0.9965,-0.075335,-0.036164,385.49,-0.045807,0.13049,0.99039,-3.3781
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.98698,-0.14539,-0.068851,423.63,0.14072,-0.98768,0.06849,342.23,-0.077961,0.057909,0.99527,5.839,#15,-0.99738,-0.028138,-0.066626,382.43,0.021771,-0.99529,0.094435,378,-0.068969,0.092738,0.9933,27.16,#16,-0.98575,0.1483,-0.079384,325.54,-0.15398,-0.98552,0.070963,410.97,-0.067712,0.082175,0.99432,4.2932,#17,-0.50003,0.85685,-0.1256,123.82,-0.86515,-0.50072,0.028294,439.57,-0.038647,0.12281,0.99168,-31.451,#18,0.049624,0.99054,-0.12797,2.9921,-0.99773,0.043322,-0.051573,364.85,-0.045541,0.13024,0.99044,-3.3702
> hide #!6 models
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.98698,-0.14539,-0.068851,428.04,0.14072,-0.98768,0.06849,334.5,-0.077961,0.057909,0.99527,-8.0447,#15,-0.99738,-0.028138,-0.066626,386.84,0.021771,-0.99529,0.094435,370.28,-0.068969,0.092738,0.9933,13.276,#16,-0.98575,0.1483,-0.079384,329.94,-0.15398,-0.98552,0.070963,403.24,-0.067712,0.082175,0.99432,-9.5905,#17,-0.50003,0.85685,-0.1256,128.23,-0.86515,-0.50072,0.028294,431.85,-0.038647,0.12281,0.99168,-45.335,#18,0.049624,0.99054,-0.12797,7.3946,-0.99773,0.043322,-0.051573,357.13,-0.045541,0.13024,0.99044,-17.254
> show #!6 models
> view matrix models
> #14,-0.98698,-0.14539,-0.068851,426.3,0.14072,-0.98768,0.06849,331.51,-0.077961,0.057909,0.99527,-13.156,#15,-0.99738,-0.028138,-0.066626,385.1,0.021771,-0.99529,0.094435,367.29,-0.068969,0.092738,0.9933,8.1645,#16,-0.98575,0.1483,-0.079384,328.21,-0.15398,-0.98552,0.070963,400.25,-0.067712,0.082175,0.99432,-14.702,#17,-0.50003,0.85685,-0.1256,126.49,-0.86515,-0.50072,0.028294,428.86,-0.038647,0.12281,0.99168,-50.447,#18,0.049624,0.99054,-0.12797,5.6572,-0.99773,0.043322,-0.051573,354.14,-0.045541,0.13024,0.99044,-22.366
> view matrix models
> #14,-0.98698,-0.14539,-0.068851,424.66,0.14072,-0.98768,0.06849,333.42,-0.077961,0.057909,0.99527,-13.475,#15,-0.99738,-0.028138,-0.066626,383.46,0.021771,-0.99529,0.094435,369.19,-0.068969,0.092738,0.9933,7.8463,#16,-0.98575,0.1483,-0.079384,326.57,-0.15398,-0.98552,0.070963,402.16,-0.067712,0.082175,0.99432,-15.02,#17,-0.50003,0.85685,-0.1256,124.85,-0.86515,-0.50072,0.028294,430.76,-0.038647,0.12281,0.99168,-50.765,#18,0.049624,0.99054,-0.12797,4.0215,-0.99773,0.043322,-0.051573,356.05,-0.045541,0.13024,0.99044,-22.684
> fitmap #21 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 2890 points
correlation = 0.6337, correlation about mean = 0.3483, overlap = 279.2
steps = 44, shift = 0.161, angle = 0.0829 degrees
Position of volume sum (#21) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99933615 -0.01594970 0.03275479 -5.39438354
0.01760431 0.99855042 -0.05086407 10.12324442
-0.03189604 0.05140693 0.99816831 -2.67516804
Axis 0.81452814 0.51490563 0.26723789
Axis point 0.00000000 59.57191385 196.27758637
Rotation angle (degrees) 3.59935568
Shift along axis 0.10373211
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5699, correlation about mean = 0.09571, overlap = 58.25
steps = 96, shift = 2.73, angle = 2.09 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97868214 -0.19352159 -0.06877974 430.25819480
0.18734385 -0.97841940 0.08716510 319.35143892
-0.08416376 0.07242146 0.99381667 -10.88672943
Axis -0.03865043 0.04032921 0.99843863
Axis point 199.49734543 180.60663031 0.00000000
Rotation angle (degrees) 169.00458036
Shift along axis -14.62020787
> view matrix models
> #14,-0.98409,-0.1679,-0.058123,425.12,0.16187,-0.9821,0.09633,325.27,-0.073257,0.085388,0.99365,-16.125,#15,-0.99738,-0.028138,-0.066626,384.94,0.021771,-0.99529,0.094435,370.53,-0.068969,0.092738,0.9933,7.7473,#16,-0.98575,0.1483,-0.079384,328.04,-0.15398,-0.98552,0.070963,403.5,-0.067712,0.082175,0.99432,-15.119,#17,-0.50003,0.85685,-0.1256,126.33,-0.86515,-0.50072,0.028294,432.1,-0.038647,0.12281,0.99168,-50.864,#18,0.049624,0.99054,-0.12797,5.4952,-0.99773,0.043322,-0.051573,357.39,-0.045541,0.13024,0.99044,-22.783
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.98433,-0.16568,-0.060439,425.27,0.15899,-0.98195,0.10245,324.61,-0.076322,0.091232,0.9929,-16.299,#15,-0.99728,-0.025902,-0.068936,384.93,0.018887,-0.99475,0.10053,369.92,-0.071178,0.098955,0.99254,7.2036,#16,-0.98523,0.15053,-0.081639,328,-0.15682,-0.98462,0.077033,402.6,-0.068788,0.088698,0.99368,-15.989,#17,-0.49783,0.85781,-0.12774,126.29,-0.8666,-0.49783,0.034235,430.49,-0.034228,0.12775,0.99122,-52.332,#18,0.052155,0.99015,-0.12992,5.5836,-0.99787,0.046573,-0.045644,355.65,-0.039143,0.13202,0.99047,-24.032
> view matrix models
> #14,-0.98403,-0.17324,-0.040842,422.4,0.16775,-0.97938,0.11256,320.39,-0.059499,0.10391,0.99281,-21.656,#15,-0.99822,-0.033462,-0.049362,382.94,0.027827,-0.99346,0.11072,366.31,-0.052744,0.10915,0.99263,2.1511,#16,-0.98779,0.14283,-0.062264,325.9,-0.14796,-0.98513,0.087357,399.32,-0.04886,0.095502,0.99423,-20.294,#17,-0.50657,0.8553,-0.10881,123.81,-0.86204,-0.50484,0.044984,428.8,-0.016456,0.11659,0.99304,-53.139,#18,0.04196,0.99285,-0.11175,2.956,-0.99866,0.03828,-0.034873,355.41,-0.030346,0.11307,0.99312,-21.861
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6384, correlation about mean = 0.2731, overlap = 64.42
steps = 52, shift = 1.69, angle = 0.94 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97837784 -0.19618208 -0.06549342 429.72266519
0.18833103 -0.97593108 0.10995426 316.01437144
-0.08548812 0.09524237 0.99177652 -14.49361899
Axis -0.03818161 0.05189202 0.99792253
Axis point 199.15099034 179.29354230 0.00000000
Rotation angle (degrees) 168.89212778
Shift along axis -14.47238775
> select subtract #15
8 models selected
> select subtract #16
6 models selected
> select subtract #17
4 models selected
> select subtract #18
2 models selected
> view matrix models
> #14,-0.98133,-0.18886,-0.036241,421.76,0.18613,-0.98018,0.067859,327.27,-0.048339,0.059847,0.99704,-17.437
> hide #!6 models
> show #!6 models
> view matrix models
> #14,-0.98199,-0.1881,-0.017672,418.11,0.18547,-0.97759,0.099592,320.77,-0.036009,0.094521,0.99487,-23.962
> view matrix models
> #14,-0.98273,-0.185,-0.0049978,415.27,0.18442,-0.98118,0.057148,329.77,-0.015476,0.055239,0.99835,-21.87
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6679, correlation about mean = 0.2871, overlap = 72.77
steps = 176, shift = 2.7, angle = 1.01 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97483730 -0.22112197 -0.02823636 425.14601940
0.21940111 -0.97414133 0.05396111 324.16539882
-0.03943819 0.04640822 0.99814372 -17.10243063
Axis -0.01713723 0.02541653 0.99953005
Axis point 194.31407946 186.00916046 0.00000000
Rotation angle (degrees) 167.26952190
Shift along axis -16.14105876
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6675, correlation about mean = 0.2863, overlap = 72.82
steps = 48, shift = 0.0134, angle = 0.0971 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97446569 -0.22276852 -0.02812093 425.30424044
0.22104560 -0.97376073 0.05411897 323.84115186
-0.03943906 0.04652107 0.99813844 -17.12479839
Axis -0.01711148 0.02548994 0.99952862
Axis point 194.27257148 186.03858124 0.00000000
Rotation angle (degrees) 167.17278194
Shift along axis -16.13961994
> hide #!6 models
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.98014,-0.19759,-0.016594,421.58,0.19616,-0.97846,0.06436,321.73,-0.028953,0.059827,0.99779,-23.32
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.97891,-0.20269,-0.025492,423.9,0.19969,-0.97572,0.089969,315.79,-0.043108,0.082981,0.99562,-24.227
> view matrix models
> #14,-0.97908,-0.202,-0.024317,423.59,0.19924,-0.97612,0.086567,316.58,-0.041223,0.079911,0.99595,-24.116
> ui mousemode right "translate selected models"
> view matrix models
> #14,-0.97908,-0.202,-0.024317,422.67,0.19924,-0.97612,0.086567,317.96,-0.041223,0.079911,0.99595,-21.761
> show #!6 models
> view matrix models
> #14,-0.97908,-0.202,-0.024317,422.57,0.19924,-0.97612,0.086567,319.93,-0.041223,0.079911,0.99595,-22.202
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5972, correlation about mean = 0.1839, overlap = 59.69
steps = 68, shift = 0.347, angle = 0.816 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97362990 -0.22415780 -0.04240383 430.24545454
0.21983479 -0.97154043 0.08821473 313.58871307
-0.06097106 0.07656666 0.99519850 -16.89611004
Axis -0.02620292 0.04176791 0.99878368
Axis point 197.19841303 181.36500711 0.00000000
Rotation angle (degrees) 167.15780131
Shift along axis -15.05129983
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5972, correlation about mean = 0.1836, overlap = 59.71
steps = 64, shift = 0.00527, angle = 0.25 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97458017 -0.21992021 -0.04276181 429.82801154
0.21559160 -0.97250980 0.08800530 314.39965832
-0.06094042 0.07654914 0.99520173 -16.89952246
Axis -0.02627310 0.04169010 0.99878509
Axis point 197.29090560 181.27259060 0.00000000
Rotation angle (degrees) 167.40718942
Shift along axis -15.06455514
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5971, correlation about mean = 0.1833, overlap = 59.74
steps = 44, shift = 0.007, angle = 0.182 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97525714 -0.21682866 -0.04311423 429.53383667
0.21248555 -0.97320205 0.08790705 314.98876080
-0.06101962 0.07657083 0.99519521 -16.88652675
Axis -0.02637331 0.04165625 0.99878386
Axis point 197.36463696 181.20484730 0.00000000
Rotation angle (degrees) 167.58925569
Shift along axis -15.07296702
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5972, correlation about mean = 0.1832, overlap = 59.76
steps = 60, shift = 0.00455, angle = 0.208 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97602309 -0.21329639 -0.04339998 429.17832918
0.20894604 -0.97397883 0.08778822 315.65141319
-0.06099558 0.07661507 0.99519328 -16.89246971
Axis -0.02642926 0.04162110 0.99878385
Axis point 197.44047107 181.12318845 0.00000000
Rotation angle (degrees) 167.79686443
Shift along axis -15.07703436
> view matrix models
> #14,-0.98167,-0.18773,-0.032751,424.59,0.18379,-0.97811,0.097603,319.26,-0.050357,0.089795,0.99469,-20.521
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5971, correlation about mean = 0.1827, overlap = 59.78
steps = 52, shift = 2.63, angle = 0.214 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97679762 -0.20965613 -0.04371159 428.81183166
0.20529883 -0.97476793 0.08763481 316.33476313
-0.06098183 0.07662754 0.99519316 -16.89520946
Axis -0.02649418 0.04156896 0.99878430
Axis point 197.51943644 181.04020002 0.00000000
Rotation angle (degrees) 168.01064132
Shift along axis -15.08598272
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.5968, correlation about mean = 0.1819, overlap = 59.82
steps = 48, shift = 0.021, angle = 0.167 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97737548 -0.20684614 -0.04417960 428.56006351
0.20245759 -0.97536042 0.08765253 316.85515029
-0.06122163 0.07672494 0.99517093 -16.85587630
Axis -0.02666541 0.04158578 0.99877904
Axis point 197.59734186 180.97335789 0.00000000
Rotation angle (degrees) 168.17623546
Shift along axis -15.08635700
> view matrix models
> #14,-0.98287,-0.18124,-0.033528,424.18,0.17727,-0.97933,0.097447,324.97,-0.050496,0.089834,0.99468,-21.592
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6372, correlation about mean = 0.2719, overlap = 64.33
steps = 68, shift = 4.47, angle = 1.79 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97691630 -0.20354902 -0.06482537 430.46886946
0.19571228 -0.97443697 0.11031449 314.63782226
-0.08562265 0.09508090 0.99178040 -14.45682393
Axis -0.03807514 0.05198114 0.99792196
Axis point 198.99128200 179.46108193 0.00000000
Rotation angle (degrees) 168.46033033
Shift along axis -14.46171438
> view matrix models
> #14,-0.98255,-0.17773,-0.054779,424.48,0.17027,-0.97812,0.11955,318.8,-0.074828,0.10813,0.99132,-16.396
> view matrix models
> #14,-0.98255,-0.17773,-0.054779,427.56,0.17027,-0.97812,0.11955,317.07,-0.074828,0.10813,0.99132,-17.71
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6394, correlation about mean = 0.2745, overlap = 64.48
steps = 76, shift = 4.57, angle = 0.773 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97948563 -0.19037549 -0.06606863 429.13936146
0.18249931 -0.97705873 0.10977348 317.07739155
-0.08545111 0.09546407 0.99175839 -14.51946764
Axis -0.03829606 0.05187304 0.99791913
Axis point 199.28334649 179.15369130 0.00000000
Rotation angle (degrees) 169.23237955
Shift along axis -14.47583327
> fitmap #14 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6396, correlation about mean = 0.2738, overlap = 64.49
steps = 36, shift = 0.0173, angle = 0.132 degrees
Position of volume sum (#14) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.97991269 -0.18812364 -0.06618616 428.88538662
0.18026963 -0.97750892 0.10944934 317.52387553
-0.08528757 0.09531944 0.99178638 -14.53796004
Axis -0.03827595 0.05174309 0.99792665
Axis point 199.31914672 179.11678284 0.00000000
Rotation angle (degrees) 169.36339247
Shift along axis -14.49414614
> hide #!6 models
> view matrix models
> #14,-0.98516,-0.16223,-0.056117,422.25,0.15476,-0.9808,0.11865,322.02,-0.074289,0.1082,0.99135,-19.513
> view matrix models
> #14,-0.98516,-0.16223,-0.056117,422.61,0.15476,-0.9808,0.11865,318.44,-0.074289,0.1082,0.99135,-19.828
> show #!6 models
> view matrix models
> #14,-0.98516,-0.16223,-0.056117,425.56,0.15476,-0.9808,0.11865,320.77,-0.074289,0.1082,0.99135,-18.515
> ui mousemode right "rotate selected models"
> view matrix models
> #14,-0.98524,-0.16475,-0.046544,424.07,0.16046,-0.98343,0.084346,327.04,-0.059668,0.075632,0.99535,-16.643
> hide #!6 models
> select add #15
4 models selected
> select subtract #14
2 models selected
> show #!6 models
> view matrix models
> #15,-0.99713,-0.061844,-0.043615,385.85,0.056546,-0.9919,0.11372,361.25,-0.050295,0.11093,0.99255,1.5393
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.99713,-0.061844,-0.043615,387.25,0.056546,-0.9919,0.11372,359.82,-0.050295,0.11093,0.99255,8.1599
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6433, correlation about mean = 0.2459, overlap = 69.53
steps = 72, shift = 4, angle = 1.82 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.99427415 -0.09391340 -0.05098215 391.24263012
0.08629041 -0.98703550 0.13533244 346.81787298
-0.06303072 0.13015827 0.98948771 9.45101462
Axis -0.02863712 0.06668450 0.99736307
Axis point 187.91961091 181.98459820 0.00000000
Rotation angle (degrees) 174.81682542
Shift along axis 21.34940494
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.99628,-0.072077,-0.047192,385.93,0.067013,-0.9926,0.10129,358.99,-0.054143,0.097748,0.99374,10.535
> ui mousemode right "rotate selected models"
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.99628,-0.072077,-0.047192,386.44,0.067013,-0.9926,0.10129,361.16,-0.054143,0.097748,0.99374,12.077
> view matrix models
> #15,-0.99628,-0.072077,-0.047192,387.02,0.067013,-0.9926,0.10129,362.21,-0.054143,0.097748,0.99374,11.544
> view matrix models
> #15,-0.99628,-0.072077,-0.047192,388.85,0.067013,-0.9926,0.10129,360.03,-0.054143,0.097748,0.99374,10.559
> hide #!6 models
> show #!6 models
> view matrix models
> #15,-0.99628,-0.072077,-0.047192,388.05,0.067013,-0.9926,0.10129,362.81,-0.054143,0.097748,0.99374,8.0871
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.99691,-0.070251,-0.035253,385.54,0.066743,-0.99348,0.0924,364.72,-0.041515,0.089762,0.9951,7.1351
> select subtract #15
Nothing selected
> select add #16
2 models selected
> fitmap #16 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6887, correlation about mean = 0.3556, overlap = 73.17
steps = 76, shift = 4.25, angle = 2.38 degrees
Position of volume sum (#16) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.99363534 0.10550640 -0.03946139 328.69450656
-0.10768782 -0.99249242 0.05798373 396.92313252
-0.03304748 0.06186419 0.99753730 -13.88635977
Axis 0.01819031 -0.03006626 -0.99938238
Axis point 174.84833929 189.87891793 0.00000000
Rotation angle (degrees) 173.87701307
Shift along axis 7.92284303
> ui mousemode right "translate selected models"
> view matrix models
> #16,-0.99096,0.13122,-0.028035,319.91,-0.13286,-0.9888,0.067933,403.91,-0.018806,0.071044,0.9973,-16.171
> fitmap #16 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6859, correlation about mean = 0.2917, overlap = 75.6
steps = 76, shift = 3.41, angle = 2.39 degrees
Position of volume sum (#16) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.99092563 0.10732564 -0.08091719 334.22320786
-0.11237443 -0.99181320 0.06065106 402.25587413
-0.07374533 0.06919372 0.99487378 -9.08456921
Axis 0.03883324 -0.03260191 -0.99871372
Axis point 178.05216341 192.05553226 0.00000000
Rotation angle (degrees) 173.68517375
Shift along axis 8.93754386
> ui mousemode right "rotate selected models"
> view matrix models
> #16,-0.98887,0.12914,-0.07389,327.06,-0.13555,-0.98671,0.08959,399.95,-0.061338,0.098608,0.99323,-16.19
> ui mousemode right "translate selected models"
> view matrix models
> #16,-0.98887,0.12914,-0.07389,331,-0.13555,-0.98671,0.08959,400.84,-0.061338,0.098608,0.99323,-15.443
> view matrix models
> #16,-0.98887,0.12914,-0.07389,330.19,-0.13555,-0.98671,0.08959,401.09,-0.061338,0.098608,0.99323,-15.641
> select subtract #16
Nothing selected
> select add #17
2 models selected
> view matrix models
> #17,-0.50657,0.8553,-0.10881,121.22,-0.86204,-0.50484,0.044984,431.05,-0.016456,0.11659,0.99304,-53.636
> view matrix models
> #17,-0.50657,0.8553,-0.10881,126.04,-0.86204,-0.50484,0.044984,435.51,-0.016456,0.11659,0.99304,-48.782
> view matrix models
> #17,-0.50657,0.8553,-0.10881,124.8,-0.86204,-0.50484,0.044984,436.28,-0.016456,0.11659,0.99304,-47.194
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6413, correlation about mean = 0.2082, overlap = 71.24
steps = 80, shift = 3.62, angle = 1.81 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.53196474 0.84160082 -0.09338927 129.86623353
-0.84620167 -0.53239449 0.02233456 439.03721975
-0.03092315 0.09090736 0.99537912 -40.87723232
Axis 0.04056723 -0.03695456 -0.99849319
Axis point 185.49717830 184.79095565 0.00000000
Rotation angle (degrees) 122.30933466
Shift along axis 29.85952369
> view matrix models
> #17,-0.51087,0.85583,-0.081072,120.02,-0.85953,-0.51015,0.030925,436.17,-0.014892,0.085483,0.99623,-41.382
> view matrix models
> #17,-0.51087,0.85583,-0.081072,121.13,-0.85953,-0.51015,0.030925,436.77,-0.014892,0.085483,0.99623,-43.66
> view matrix models
> #17,-0.51087,0.85583,-0.081072,122.14,-0.85953,-0.51015,0.030925,437.36,-0.014892,0.085483,0.99623,-41.736
> select subtract #17
Nothing selected
> select add #18
2 models selected
> view matrix models
> #18,0.04196,0.99285,-0.11175,6.3004,-0.99866,0.03828,-0.034873,364.41,-0.030346,0.11307,0.99312,-17.431
> view matrix models
> #18,0.04196,0.99285,-0.11175,0.28372,-0.99866,0.03828,-0.034873,363.56,-0.030346,0.11307,0.99312,-15.704
> view matrix models
> #18,0.04196,0.99285,-0.11175,0.63546,-0.99866,0.03828,-0.034873,366.71,-0.030346,0.11307,0.99312,-15.951
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.682, correlation about mean = 0.2963, overlap = 72.54
steps = 88, shift = 2.96, angle = 4.1 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.06651991 0.99500516 -0.07442962 -7.35340603
-0.99720633 0.06375579 -0.03891905 361.76373847
-0.03397932 0.07681056 0.99646647 -11.34311520
Axis 0.05798135 -0.02026588 -0.99811195
Axis point 189.12889414 185.03230642 0.00000000
Rotation angle (degrees) 86.36666919
Shift along axis 3.56387728
> view matrix models
> #18,0.091134,0.994,-0.060566,-14.317,-0.99554,0.08946,-0.029819,356.41,-0.024222,0.063013,0.99772,-11.977
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.6962, correlation about mean = 0.3166, overlap = 74.52
steps = 68, shift = 1.44, angle = 2.04 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.10195306 0.99218343 -0.07195520 -12.70649362
-0.99420866 0.09915592 -0.04143893 356.53224173
-0.03398023 0.07576330 0.99654662 -11.19899088
Axis 0.05888940 -0.01908090 -0.99808214
Axis point 190.58032205 185.52024898 0.00000000
Rotation angle (degrees) 84.32832595
Shift along axis 3.62627890
> select subtract #18
Nothing selected
> vop add #14-18
Opened volume sum as #22, grid size 136,93,248, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> show #!14 models
> hide #!14 models
> select add #14
2 models selected
> show #!14 models
> select subtract #14
Nothing selected
> show #!15 models
> show #!16 models
> show #!17 models
> show #!18 models
> show #!19 models
> hide #!19 models
> select add #18
2 models selected
> select subtract #18
Nothing selected
> select add #17
2 models selected
> select subtract #17
Nothing selected
> select add #18
2 models selected
> view matrix models
> #18,0.12648,0.99027,-0.058028,-21.694,-0.99166,0.12476,-0.032276,319.08,-0.024722,0.061626,0.99779,-10.437
> view matrix models
> #18,0.12648,0.99027,-0.058028,-20.843,-0.99166,0.12476,-0.032276,317.73,-0.024722,0.061626,0.99779,19.019
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.7561, correlation about mean = 0.4471, overlap = 98.3
steps = 68, shift = 1.01, angle = 1.31 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.10925753 0.99063568 -0.08187606 -12.73308883
-0.99265312 0.10442942 -0.06110834 326.29482758
-0.05198582 0.08795105 0.99476730 19.74243154
Axis 0.07493785 -0.01502696 -0.99707498
Axis point 175.83141012 169.02230266 0.00000000
Rotation angle (degrees) 84.01736009
Shift along axis -25.54209451
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.13335,0.98703,-0.089433,-14.365,-0.98984,0.12815,-0.06159,322.22,-0.04933,0.096737,0.99409,18.368
> view matrix models
> #18,0.13339,0.98766,-0.082076,-15.906,-0.98994,0.12884,-0.058449,321.52,-0.047153,0.089046,0.99491,19.023
> view matrix models
> #18,0.49372,0.86302,-0.10694,-45.856,-0.86957,0.48852,-0.072148,253.22,-0.010024,0.12861,0.99164,8.3244
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 427 points
correlation = 0.7535, correlation about mean = 0.4191, overlap = 92.39
steps = 76, shift = 1.93, angle = 1.94 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.46718090 0.87952503 -0.09043050 -46.01544108
-0.88395576 0.46241512 -0.06924175 257.53630788
-0.01908342 0.11228497 0.99349273 11.40114038
Axis 0.10231272 -0.04021289 -0.99393915
Axis point 190.14126922 164.43609596 0.00000000
Rotation angle (degrees) 62.51319103
Shift along axis -26.39628422
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.48898,0.86899,-0.075836,-52.3,-0.87215,0.48547,-0.060564,252.45,-0.015813,0.095755,0.99528,12.186
> view matrix models
> #18,0.48898,0.86899,-0.075836,-52.935,-0.87215,0.48547,-0.060564,250.22,-0.015813,0.095755,0.99528,13.38
> view matrix models
> #18,0.48898,0.86899,-0.075836,-53.891,-0.87215,0.48547,-0.060564,251.86,-0.015813,0.095755,0.99528,13.471
> view matrix models
> #18,0.48898,0.86899,-0.075836,-54.536,-0.87215,0.48547,-0.060564,251.73,-0.015813,0.095755,0.99528,11.801
> select subtract #18
Nothing selected
> vop add #18,21,22
Opened volume sum as #23, grid size 229,205,280, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> show #!21 models
> hide #!21 models
> hide #!23 models
> show #!21 models
> hide #!21 models
> close #21
> show #!22 models
> hide #!22 models
> close #22
> show #!23 models
> hide #!23 models
> show #!18 models
> close #14-18
> show #!200.1 models
> show #!200.2 models
> show #!200.3 models
> show #!200.4 models
> show #!200.5 models
> show #!23 models
> select add #200.1
2 models selected
> view matrix models
> #200.1,0.9981,-0.040324,0.046673,37.286,0.042097,0.9984,-0.03764,-2.449,-0.045081,0.039533,0.9982,-181.42
> view matrix models
> #200.1,0.9981,-0.040324,0.046673,29.327,0.042097,0.9984,-0.03764,-37.479,-0.045081,0.039533,0.9982,-175.87
> view matrix models
> #200.1,0.9981,-0.040324,0.046673,21.575,0.042097,0.9984,-0.03764,-35.037,-0.045081,0.039533,0.9982,-173.86
> ui mousemode right "rotate selected models"
> view matrix models
> #200.1,0.93945,-0.32744,0.10112,60.607,0.33228,0.94253,-0.035004,-69.271,-0.083844,0.066484,0.99426,-171.38
> ui mousemode right "translate selected models"
> view matrix models
> #200.1,0.93945,-0.32744,0.10112,56.972,0.33228,0.94253,-0.035004,-57.892,-0.083844,0.066484,0.99426,-174.42
> view matrix models
> #200.1,0.93945,-0.32744,0.10112,65.351,0.33228,0.94253,-0.035004,-59.806,-0.083844,0.066484,0.99426,-172.73
> view matrix models
> #200.1,0.93945,-0.32744,0.10112,70.613,0.33228,0.94253,-0.035004,-57.607,-0.083844,0.066484,0.99426,-172.52
> view matrix models
> #200.1,0.93945,-0.32744,0.10112,68.28,0.33228,0.94253,-0.035004,-54.503,-0.083844,0.066484,0.99426,-172.86
> view matrix models
> #200.1,0.93945,-0.32744,0.10112,68.279,0.33228,0.94253,-0.035004,-54.57,-0.083844,0.066484,0.99426,-173.11
> vop add #23,200.1
Opened T137_glycan.mrc resampled as #14, grid size 11,10,9, pixel
1.07,1.07,1.07, shown at step 1, values float32
> hide #!14 models
> show #!14 models
> hide #!23 models
> select subtract #200.1
Nothing selected
> show #!200.1 models
> hide #!200.1 models
> show #!200.1 models
> show #!23 models
> hide #!14 models
> show #!14 models
> close #14
> close #200
> color #23 #e93323ff models
> color #23 #ff1721ff models
> color #23 #e93323ff models
> color #30 #e93323ff models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T137_glycan_all.mrc
> models #23
> rename #23 id #32
> hide #!32 models
> color #5 #fff6b6ff
> select #5/B-z,1-9,0,AA-Al:152
594 atoms, 495 bonds, 99 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:152
594 atoms, 495 bonds, 99 residues, 1 model selected
> color sel hot pink
> color sel blue
> color sel red
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S152_glycan.mrc
Opened S152_glycan.mrc as #14, grid size 9,11,10, pixel 1.07,1.07,1.07, shown
at level 0.994, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S152_glycan.mrc
Opened S152_glycan.mrc as #15, grid size 9,11,10, pixel 1.07,1.07,1.07, shown
at level 0.994, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S152_glycan.mrc
Opened S152_glycan.mrc as #16, grid size 9,11,10, pixel 1.07,1.07,1.07, shown
at level 0.994, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S152_glycan.mrc
Opened S152_glycan.mrc as #17, grid size 9,11,10, pixel 1.07,1.07,1.07, shown
at level 0.994, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S152_glycan.mrc
Opened S152_glycan.mrc as #18, grid size 9,11,10, pixel 1.07,1.07,1.07, shown
at level 0.994, step 1, values float32
> show #!19 models
> select add #14
594 atoms, 495 bonds, 99 residues, 3 models selected
> select add #15
594 atoms, 495 bonds, 99 residues, 5 models selected
> select add #16
594 atoms, 495 bonds, 99 residues, 7 models selected
> select add #17
594 atoms, 495 bonds, 99 residues, 9 models selected
> select add #18
594 atoms, 495 bonds, 99 residues, 11 models selected
> select add #19
594 atoms, 495 bonds, 99 residues, 13 models selected
> ui mousemode right select
> select #6
2 models selected
> select clear
> volume #14 level 0.055
> volume #15 level 0.055
> volume #16 level 0.055
> volume #17 level 0.05
> volume #17 level 0.055
> volume #18 level 0.055
> rename #14-19 id #19
> hide #!19 models
> show #!19 models
> color #19 #e93323ff models
> select add #19
13 models selected
> select clear
> select add #19.1
2 models selected
> select subtract #19.1
Nothing selected
> fitmap #19.1 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9942, correlation about mean = 0.9432, overlap = 28.51
steps = 68, shift = 1.89, angle = 10.6 degrees
Position of S152_glycan.mrc (#19.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98272311 -0.02059835 -0.18393206 41.54180560
0.00916429 0.99798408 -0.06279961 10.44783121
0.18485483 0.06002902 0.98093078 -44.29914022
Axis 0.31507317 -0.94599168 0.07634546
Axis point 260.37668972 0.00000000 201.69969011
Rotation angle (degrees) 11.24009642
Shift along axis -0.17689138
> fitmap #19.1 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.994, correlation about mean = 0.9408, overlap = 28.49
steps = 48, shift = 0.00797, angle = 0.258 degrees
Position of S152_glycan.mrc (#19.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98213716 -0.01797171 -0.18730619 41.94061680
0.00663051 0.99811571 -0.06100056 10.63581542
0.18804954 0.05866898 0.98040569 -44.70042274
Axis 0.30316203 -0.95089869 0.06232546
Axis point 258.43875873 0.00000000 199.56722814
Rotation angle (degrees) 11.38314382
Shift along axis -0.18475456
> select add #19.2
2 models selected
> select add #19.3
4 models selected
> select add #19.4
6 models selected
> select add #19.5
8 models selected
> select add #19.6
10 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #19.2,1,0,0,-0.67254,0,1,0,-2.2856,0,0,1,52.318,#19.3,1,0,0,-0.67254,0,1,0,-2.2856,0,0,1,52.318,#19.4,1,0,0,-0.67254,0,1,0,-2.2856,0,0,1,52.318,#19.5,1,0,0,-0.67254,0,1,0,-2.2856,0,0,1,52.318,#19.6,0.9996,-0.025113,0.012944,1.0262,0.02497,0.99963,0.011123,-8.269,-0.013218,-0.010796,0.99985,56.286
> fitmap #19.2 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9394, correlation about mean = 0.4995, overlap = 23.17
steps = 68, shift = 3.25, angle = 17.8 degrees
Position of S152_glycan.mrc (#19.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.95253617 0.27998552 0.11951131 -53.28422953
-0.29030334 0.95360783 0.07972505 52.92901394
-0.09164506 -0.11063553 0.98962668 89.25195396
Axis -0.29873449 0.33136951 -0.89495919
Axis point 191.78632233 272.35117431 0.00000000
Rotation angle (degrees) 18.57898452
Shift along axis -46.41995797
> fitmap #19.2 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9393, correlation about mean = 0.4984, overlap = 23.16
steps = 36, shift = 0.00555, angle = 0.0658 degrees
Position of S152_glycan.mrc (#19.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.95240034 0.27996006 0.12064810 -53.46382930
-0.29041103 0.95356991 0.07978632 52.94386129
-0.09270942 -0.11102606 0.98948379 89.55886211
Axis -0.29900184 0.33432995 -0.89376808
Axis point 192.00902969 273.12690895 0.00000000
Rotation angle (degrees) 18.60743346
Shift along axis -46.35835023
> hide #!6 models
> show #!6 models
> select subtract #19.2
8 models selected
> view matrix models
> #19.3,1,0,0,-1.5914,0,1,0,-4.6641,0,0,1,104.97,#19.4,1,0,0,-1.5914,0,1,0,-4.6641,0,0,1,104.97,#19.5,1,0,0,-1.5914,0,1,0,-4.6641,0,0,1,104.97,#19.6,0.9996,-0.025113,0.012944,0.10729,0.02497,0.99963,0.011123,-10.647,-0.013218,-0.010796,0.99985,108.94
> view matrix models
> #19.3,1,0,0,-1.1747,0,1,0,-4.0201,0,0,1,105.28,#19.4,1,0,0,-1.1747,0,1,0,-4.0201,0,0,1,105.28,#19.5,1,0,0,-1.1747,0,1,0,-4.0201,0,0,1,105.28,#19.6,0.9996,-0.025113,0.012944,0.52397,0.02497,0.99963,0.011123,-10.003,-0.013218,-0.010796,0.99985,109.25
> fitmap #19.3 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9412, correlation about mean = 0.3809, overlap = 22.96
steps = 88, shift = 5.82, angle = 61.9 degrees
Position of S152_glycan.mrc (#19.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.56943606 0.17393608 -0.80342319 215.74568163
0.24693181 0.89602658 0.36900008 -110.64912025
0.78407096 -0.40851269 0.46727949 94.37679218
Axis -0.43947676 -0.89730587 0.04125968
Axis point 48.11214512 0.00000000 247.32480486
Rotation angle (degrees) 62.20100925
Shift along axis 8.36484848
> fitmap #19.3 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9406, correlation about mean = 0.3745, overlap = 22.96
steps = 44, shift = 0.0149, angle = 0.221 degrees
Position of S152_glycan.mrc (#19.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.57025409 0.17034886 -0.80361156 216.11009609
0.24958016 0.89609047 0.36705806 -110.86564874
0.78263658 -0.40988187 0.46848356 94.65338462
Axis -0.43942651 -0.89716008 0.04481213
Axis point 48.00585569 0.00000000 248.03147024
Rotation angle (degrees) 62.13343213
Shift along axis 8.74134814
> select subtract #19.3
6 models selected
> view matrix models
> #19.4,1,0,0,18.113,0,1,0,-49.64,0,0,1,-8.1886,#19.5,1,0,0,18.113,0,1,0,-49.64,0,0,1,-8.1886,#19.6,0.9996,-0.025113,0.012944,19.811,0.02497,0.99963,0.011123,-55.624,-0.013218,-0.010796,0.99985,-4.2198
> select subtract #19.4
4 models selected
> select subtract #19.5
2 models selected
> select subtract #19.6
Nothing selected
> select add #19.1
2 models selected
> select subtract #19.1
Nothing selected
> select add #19.2
2 models selected
> select subtract #19.2
Nothing selected
> select add #19.3
2 models selected
> view matrix models
> #19.3,0.57385,0.14246,-0.80648,222.36,0.27235,0.89551,0.35197,-112.13,0.77235,-0.42162,0.47509,96.078
> ui mousemode right "rotate selected models"
> view matrix models
> #19.3,0.90951,-0.40443,-0.096037,90.044,0.38273,0.72464,0.57307,-154.5,-0.16217,-0.55797,0.81386,252.14
> view matrix models
> #19.3,0.94627,0.12016,0.30022,-64.726,-0.25699,0.84294,0.47266,-13.612,-0.19627,-0.52442,0.82853,252.13
> view matrix models
> #19.3,0.77744,0.35447,0.51956,-101.91,-0.38345,0.92191,-0.055205,102.93,-0.49856,-0.1563,0.85265,262.44
> view matrix models
> #19.3,0.84663,0.37171,0.38084,-92.907,-0.36232,0.92677,-0.099095,106.03,-0.38979,-0.054091,0.91931,212.36
> fitmap #19.3 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9412, correlation about mean = 0.381, overlap = 22.97
steps = 76, shift = 2.71, angle = 87.5 degrees
Position of S152_glycan.mrc (#19.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.56971336 0.17329219 -0.80336574 215.76456146
0.24693781 0.89625266 0.36844658 -110.57580181
0.78386759 -0.40829031 0.46781473 94.28918679
Axis -0.43917423 -0.89743641 0.04163991
Axis point 48.12137526 0.00000000 247.39520508
Rotation angle (degrees) 62.16736734
Shift along axis 8.40270993
> fitmap #19.3 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9407, correlation about mean = 0.3757, overlap = 22.96
steps = 44, shift = 0.0118, angle = 0.153 degrees
Position of S152_glycan.mrc (#19.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.57031460 0.17092296 -0.80344671 215.98526564
0.24891788 0.89616029 0.36733721 -110.78481268
0.78280340 -0.40949002 0.46854751 94.55017788
Axis -0.43938830 -0.89721333 0.04411541
Axis point 48.00083584 0.00000000 247.89239915
Rotation angle (degrees) 62.12713604
Shift along axis 8.66733173
> view matrix models
> #19.3,0.88289,0.20316,-0.42335,74.163,-0.25451,0.96469,-0.067846,73.473,0.39462,0.16765,0.90342,16.639
> view matrix models
> #19.3,0.96738,0.20884,0.14341,-52.274,-0.22524,0.96812,0.10957,33.058,-0.11596,-0.13829,0.98358,153.44
> ui mousemode right "translate selected models"
> view matrix models
> #19.3,0.96738,0.20884,0.14341,-50.201,-0.22524,0.96812,0.10957,33.998,-0.11596,-0.13829,0.98358,99.83
> fitmap #19.3 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9395, correlation about mean = 0.5011, overlap = 23.2
steps = 52, shift = 1.11, angle = 2.91 degrees
Position of S152_glycan.mrc (#19.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.95287352 0.28049338 0.11556616 -52.68978182
-0.29050514 0.95341991 0.08122345 52.71817817
-0.08740044 -0.11096824 0.98997335 88.32074896
Axis -0.30230914 0.31925759 -0.89815576
Axis point 189.37742385 269.85291560 0.00000000
Rotation angle (degrees) 18.53432768
Shift along axis -46.56650796
> view matrix models
> #19.3,0.95867,0.25497,0.12625,-53.029,-0.26753,0.95886,0.094958,45.531,-0.096843,-0.12481,0.98744,144.36
> select subtract #19.3
Nothing selected
> select add #19.4
2 models selected
> select add #19.5
4 models selected
> select add #19.6
6 models selected
> view matrix models
> #19.4,1,0,0,14.658,0,1,0,-50.481,0,0,1,-53.15,#19.5,1,0,0,14.658,0,1,0,-50.481,0,0,1,-53.15,#19.6,0.9996,-0.025113,0.012944,16.357,0.02497,0.99963,0.011123,-56.465,-0.013218,-0.010796,0.99985,-49.181
> view matrix models
> #19.4,1,0,0,33.045,0,1,0,-17.142,0,0,1,-53.444,#19.5,1,0,0,33.045,0,1,0,-17.142,0,0,1,-53.444,#19.6,0.9996,-0.025113,0.012944,34.744,0.02497,0.99963,0.011123,-23.126,-0.013218,-0.010796,0.99985,-49.475
> view matrix models
> #19.4,1,0,0,-4.3965,0,1,0,-6.401,0,0,1,-49.558,#19.5,1,0,0,-4.3965,0,1,0,-6.401,0,0,1,-49.558,#19.6,0.9996,-0.025113,0.012944,-2.6978,0.02497,0.99963,0.011123,-12.384,-0.013218,-0.010796,0.99985,-45.59
> view matrix models
> #19.4,1,0,0,-1.8557,0,1,0,-1.0378,0,0,1,-51.86,#19.5,1,0,0,-1.8557,0,1,0,-1.0378,0,0,1,-51.86,#19.6,0.9996,-0.025113,0.012944,-0.15699,0.02497,0.99963,0.011123,-7.0211,-0.013218,-0.010796,0.99985,-47.891
> view matrix models
> #19.4,1,0,0,0.68014,0,1,0,0.23108,0,0,1,-52.263,#19.5,1,0,0,0.68014,0,1,0,0.23108,0,0,1,-52.263,#19.6,0.9996,-0.025113,0.012944,2.3789,0.02497,0.99963,0.011123,-5.7523,-0.013218,-0.010796,0.99985,-48.294
> fitmap #19.4 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9612, correlation about mean = 0.7158, overlap = 27.29
steps = 68, shift = 2.13, angle = 55.7 degrees
Position of S152_glycan.mrc (#19.4) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.56554103 -0.02051636 -0.82446493 254.85844213
-0.14544373 0.98154085 -0.12419211 58.69245610
0.81179398 0.19014899 0.55211765 -168.13168543
Axis 0.18813175 -0.97929368 -0.07476847
Axis point 292.07873798 0.00000000 154.51251543
Rotation angle (degrees) 56.66044056
Shift along axis 3.04076297
> select subtract #19.4
4 models selected
> view matrix models
> #19.5,1,0,0,3.8097,0,1,0,-7.7264,0,0,1,-102.88,#19.6,0.9996,-0.025113,0.012944,5.5084,0.02497,0.99963,0.011123,-13.71,-0.013218,-0.010796,0.99985,-98.907
> select subtract #19.5
2 models selected
> select subtract #19.6
Nothing selected
> select add #19.4
2 models selected
> view matrix models
> #19.4,0.57945,-0.042741,-0.81389,251.89,-0.12233,0.98275,-0.1387,55.912,0.80578,0.17993,0.56422,-168.12
> view matrix models
> #19.4,0.57945,-0.042741,-0.81389,253.38,-0.12233,0.98275,-0.1387,56.031,0.80578,0.17993,0.56422,-168.33
> view matrix models
> #19.4,0.57945,-0.042741,-0.81389,251.46,-0.12233,0.98275,-0.1387,70.995,0.80578,0.17993,0.56422,-117.29
> view matrix models
> #19.4,0.57945,-0.042741,-0.81389,258.8,-0.12233,0.98275,-0.1387,66.281,0.80578,0.17993,0.56422,-118.93
> view matrix models
> #19.4,0.57945,-0.042741,-0.81389,250.01,-0.12233,0.98275,-0.1387,62.326,0.80578,0.17993,0.56422,-118.4
> fitmap #19.4 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.8782, correlation about mean = 0.3364, overlap = 19.46
steps = 84, shift = 3.41, angle = 47.5 degrees
Position of S152_glycan.mrc (#19.4) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.11410758 -0.10601980 -0.98779515 443.87346525
0.26001248 0.95644478 -0.13269095 -19.03620498
0.95883939 -0.27198011 -0.08157113 35.68406032
Axis -0.07014823 -0.98035611 0.18433968
Axis point 205.98774803 0.00000000 216.61101595
Rotation angle (degrees) 96.86999691
Shift along axis -5.89669193
> view matrix models
> #19.4,-0.10823,-0.13354,-0.98512,448.4,0.26759,0.95045,-0.15824,-14.48,0.95743,-0.28074,-0.067133,34.377
> view matrix models
> #19.4,-0.10823,-0.13354,-0.98512,445.47,0.26759,0.95045,-0.15824,-21.105,0.95743,-0.28074,-0.067133,34.101
> fitmap #19.4 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9941, correlation about mean = 0.9425, overlap = 28.51
steps = 124, shift = 1.83, angle = 86.6 degrees
Position of S152_glycan.mrc (#19.4) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98249868 -0.01916007 -0.18528154 41.64682683
0.00784540 0.99806954 -0.06160886 10.49369042
0.18610429 0.05907702 0.98075232 -44.40329614
Axis 0.30831607 -0.94877893 0.06899085
Axis point 259.27240069 0.00000000 200.58380125
Rotation angle (degrees) 11.28665764
Shift along axis -0.17922769
> hide #!6 models
> show #!6 models
> view matrix models
> #19.4,0.98431,-0.043491,-0.17101,47.071,0.034458,0.99787,-0.055446,-1.6988,0.17305,0.048683,0.98371,-91.32
> view matrix models
> #19.4,0.98431,-0.043491,-0.17101,47.553,0.034458,0.99787,-0.055446,3.657,0.17305,0.048683,0.98371,-93.031
> view matrix models
> #19.4,0.98431,-0.043491,-0.17101,44.347,0.034458,0.99787,-0.055446,5.2786,0.17305,0.048683,0.98371,-93.24
> fitmap #19.4 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9613, correlation about mean = 0.7156, overlap = 27.26
steps = 56, shift = 1.01, angle = 45.8 degrees
Position of S152_glycan.mrc (#19.4) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.56385259 -0.02307096 -0.82555314 255.79828418
-0.14481562 0.98136034 -0.12633419 58.98873510
0.81307976 0.19078685 0.55000153 -168.09794002
Axis 0.18949897 -0.97918211 -0.07274979
Axis point 292.16512937 0.00000000 154.82193649
Rotation angle (degrees) 56.79698666
Shift along axis 2.94188686
> view matrix models
> #19.4,0.57776,-0.045281,-0.81495,254.67,-0.12173,0.98251,-0.14089,56.288,0.80708,0.1806,0.56214,-168.29
> view matrix models
> #19.4,0.57776,-0.045281,-0.81495,253.78,-0.12173,0.98251,-0.14089,56.537,0.80708,0.1806,0.56214,-168.6
> view matrix models
> #19.4,0.57776,-0.045281,-0.81495,254.09,-0.12173,0.98251,-0.14089,55.858,0.80708,0.1806,0.56214,-168.72
> view matrix models
> #19.4,0.57776,-0.045281,-0.81495,253.7,-0.12173,0.98251,-0.14089,55.571,0.80708,0.1806,0.56214,-168.69
> view matrix models
> #19.4,0.57776,-0.045281,-0.81495,253.76,-0.12173,0.98251,-0.14089,56.257,0.80708,0.1806,0.56214,-168.48
> select add #19.5
4 models selected
> select subtract #19.4
2 models selected
> select add #19.6
4 models selected
> view matrix models
> #19.5,1,0,0,1.042,0,1,0,-3.8794,0,0,1,-102.78,#19.6,0.9996,-0.025113,0.012944,2.7407,0.02497,0.99963,0.011123,-9.8627,-0.013218,-0.010796,0.99985,-98.811
> fitmap #19.5 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.917, correlation about mean = 0.3736, overlap = 21.67
steps = 104, shift = 5.08, angle = 85 degrees
Position of S152_glycan.mrc (#19.5) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.27453799 0.02400113 -0.96127667 337.54041136
0.65980942 0.72250800 0.20647933 -143.09437823
0.69948582 -0.69094582 0.18251973 -2.61080875
Axis -0.45053211 -0.83374845 0.31919325
Axis point 202.10739844 0.00000000 182.86166188
Rotation angle (degrees) 84.84888454
Shift along axis -33.60143046
> fitmap #19.5 inMap #6
Fit map S152_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 43 points
correlation = 0.9174, correlation about mean = 0.3745, overlap = 21.68
steps = 44, shift = 0.00886, angle = 0.152 degrees
Position of S152_glycan.mrc (#19.5) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.27527660 0.02214067 -0.96111008 337.61051772
0.66124048 0.72133375 0.20600641 -143.14757996
0.69784226 -0.69223363 0.18392600 -2.34121705
Axis -0.45096107 -0.83287639 0.32085982
Axis point 201.97517585 0.00000000 183.12433639
Rotation angle (degrees) 84.82096491
Shift along axis -33.77616387
> view matrix models
> #19.5,0.26754,-0.0049401,-0.96353,341.65,0.67554,0.71401,0.18391,-143.06,0.68707,-0.70011,0.19436,-3.3011,#19.6,0.9996,-0.025113,0.012944,1.6142,0.02497,0.99963,0.011123,-12.305,-0.013218,-0.010796,0.99985,-100.78
> view matrix models
> #19.5,0.26754,-0.0049401,-0.96353,343.77,0.67554,0.71401,0.18391,-142.04,0.68707,-0.70011,0.19436,-4.4608,#19.6,0.9996,-0.025113,0.012944,3.7357,0.02497,0.99963,0.011123,-11.289,-0.013218,-0.010796,0.99985,-101.94
> select subtract #19.5
2 models selected
> view matrix models
> #19.6,0.9996,-0.025113,0.012944,45.164,0.02497,0.99963,0.011123,34.389,-0.013218,-0.010796,0.99985,-91.285
> select add #19.5
4 models selected
> select subtract #19.6
2 models selected
> view matrix models
> #19.5,0.26754,-0.0049401,-0.96353,344.03,0.67554,0.71401,0.18391,-143.07,0.68707,-0.70011,0.19436,-2.3189
> view matrix models
> #19.5,0.26754,-0.0049401,-0.96353,344.11,0.67554,0.71401,0.18391,-143.75,0.68707,-0.70011,0.19436,-2.6402
> view matrix models
> #19.5,0.26754,-0.0049401,-0.96353,344.79,0.67554,0.71401,0.18391,-143.93,0.68707,-0.70011,0.19436,-2.4896
> view matrix models
> #19.5,0.26754,-0.0049401,-0.96353,344.58,0.67554,0.71401,0.18391,-144.77,0.68707,-0.70011,0.19436,-2.613
> ui mousemode right "rotate selected models"
> view matrix models
> #19.5,0.72615,-0.23486,-0.64618,216.92,0.54621,0.76787,0.33472,-152.81,0.41757,-0.59601,0.68586,-51.868
> view matrix models
> #19.5,0.70227,-0.27297,-0.6575,229.43,0.57506,0.76195,0.29789,-151.25,0.41966,-0.5873,0.69207,-54.685
> view matrix models
> #19.5,0.42861,-0.19018,-0.88325,319.94,0.67356,0.71882,0.17208,-142.75,0.60217,-0.66868,0.43619,-34.434
> view matrix models
> #19.5,0.43409,-0.051251,-0.89941,302.83,0.12088,0.99267,0.0017759,-28.672,0.89272,-0.10949,0.4371,-173.75
> ui mousemode right "translate selected models"
> view matrix models
> #19.5,0.43409,-0.051251,-0.89941,302.54,0.12088,0.99267,0.0017759,-27.682,0.89272,-0.10949,0.4371,-175.66
> view matrix models
> #19.5,0.43409,-0.051251,-0.89941,303.33,0.12088,0.99267,0.0017759,-28.225,0.89272,-0.10949,0.4371,-175.93
> view matrix models
> #19.5,0.43409,-0.051251,-0.89941,303.29,0.12088,0.99267,0.0017759,-28.758,0.89272,-0.10949,0.4371,-175.59
> close #19.6
> select subtract #19.5
Nothing selected
> vop add #19
Opened volume sum as #14, grid size 44,28,210, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> color #14 #e93323ff models
> vop add #19
Opened volume sum as #15, grid size 44,28,210, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> color #15 #e93323ff models
> select add #15
2 models selected
> hide #!6 models
> show #!6 models
> view matrix models
> #15,0.984,-0.04231,-0.17305,61.428,0.033256,0.99794,-0.054892,33.241,0.17501,0.048259,0.98338,-63.162
> view matrix models
> #15,0.984,-0.04231,-0.17305,65.759,0.033256,0.99794,-0.054892,33.245,0.17501,0.048259,0.98338,-63.93
> view matrix models
> #15,0.984,-0.04231,-0.17305,63.751,0.033256,0.99794,-0.054892,29.077,0.17501,0.048259,0.98338,-65.911
> view matrix models
> #15,0.984,-0.04231,-0.17305,68.187,0.033256,0.99794,-0.054892,27.464,0.17501,0.048259,0.98338,-65.622
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7345, correlation about mean = 0.4172, overlap = 64.37
steps = 56, shift = 0.348, angle = 1.44 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98410353 -0.03238350 -0.17461828 67.11358263
0.01866323 0.99664813 -0.07965032 33.84980842
0.17661234 0.07512522 0.98140933 -68.35372486
Axis 0.39972976 -0.90710283 0.13183540
Axis point 416.97262612 0.00000000 375.89115851
Rotation angle (degrees) 11.16296426
Shift along axis -12.88940170
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7363, correlation about mean = 0.4193, overlap = 64.65
steps = 40, shift = 0.0201, angle = 0.639 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98380254 -0.04350736 -0.17389556 68.56712727
0.02969802 0.99625200 -0.08124017 31.82921033
0.17677835 0.07475993 0.98140734 -68.34325268
Axis 0.39925645 -0.89749185 0.18735708
Axis point 412.57977079 0.00000000 388.00329772
Rotation angle (degrees) 11.26594629
Shift along axis -13.99518120
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7381, correlation about mean = 0.4216, overlap = 64.89
steps = 44, shift = 0.0194, angle = 0.544 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98341939 -0.05297878 -0.17343453 69.86380917
0.03908419 0.99581828 -0.08257349 30.11860948
0.17708392 0.07442583 0.98137764 -68.36074588
Axis 0.39751433 -0.88749497 0.23309877
Axis point 408.27848232 0.00000000 397.92829467
Rotation angle (degrees) 11.38941901
Shift along axis -14.89305502
> view matrix models
> #15,0.98433,-0.077042,-0.15863,70.271,0.065609,0.99494,-0.076099,25.008,0.16369,0.064499,0.9844,-65.801
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7407, correlation about mean = 0.4242, overlap = 65.44
steps = 72, shift = 0.389, angle = 1.2 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98234201 -0.07388084 -0.17188887 72.65519532
0.05982787 0.99453568 -0.08555355 26.39117988
0.17727038 0.07375910 0.98139432 -68.30372921
Axis 0.39199789 -0.85912631 0.32899793
Axis point 398.43697491 -0.00000000 419.75978853
Rotation angle (degrees) 11.72450032
Shift along axis -16.66445890
> view matrix models
> #15,0.98273,-0.097912,-0.15701,72.668,0.08632,0.99313,-0.079039,21.615,0.16367,0.064122,0.98443,-65.675
> view matrix models
> #15,0.98273,-0.097912,-0.15701,73.772,0.08632,0.99313,-0.079039,22.594,0.16367,0.064122,0.98443,-65.888
> view matrix models
> #15,0.98273,-0.097912,-0.15701,73.325,0.08632,0.99313,-0.079039,22.193,0.16367,0.064122,0.98443,-66.063
> hide #!6 models
> show #!6 models
> vop add #19
Opened volume sum as #16, grid size 44,28,210, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> select subtract #15
Nothing selected
> color #16 #e93323ff models
> select add #16
2 models selected
> select add #15
4 models selected
> select subtract #16
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.98154,-0.092733,-0.16726,74.834,0.081856,0.99413,-0.07081,21.465,0.17285,0.055812,0.98337,-66.736
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7422, correlation about mean = 0.4257, overlap = 65.73
steps = 64, shift = 0.991, angle = 1.23 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98153194 -0.08566160 -0.17104716 74.27259896
0.07151764 0.99361889 -0.08721653 24.31265921
0.17742680 0.07337292 0.98139500 -68.26895817
Axis 0.38729620 -0.84042030 0.37907173
Axis point 392.53959305 0.00000000 431.56944312
Rotation angle (degrees) 11.96541625
Shift along axis -17.54618908
> view matrix models
> #15,0.97576,-0.16799,-0.14025,80.533,0.15821,0.9843,-0.078255,7.0101,0.1512,0.054169,0.98702,-62.051
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7512, correlation about mean = 0.4347, overlap = 67.49
steps = 52, shift = 0.25, angle = 1.07 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97390763 -0.15489569 -0.16586515 84.41675967
0.14022281 0.98537088 -0.09685959 12.47433179
0.17844183 0.07107421 0.98138013 -68.14290790
Axis 0.34727619 -0.71200448 0.61028589
Axis point 361.33136264 0.00000000 496.39437561
Rotation angle (degrees) 13.99203990
Shift along axis -21.15250479
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7522, correlation about mean = 0.4356, overlap = 67.76
steps = 40, shift = 0.0208, angle = 0.627 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97227457 -0.16568259 -0.16501947 86.08811518
0.15092897 0.98364116 -0.09833878 10.68689053
0.17861297 0.07070607 0.98137559 -68.12374839
Axis 0.34020397 -0.69156275 0.63718304
Axis point 357.42759616 0.00000000 505.97798055
Rotation angle (degrees) 14.38559239
Shift along axis -21.51043372
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7532, correlation about mean = 0.4364, overlap = 68.02
steps = 40, shift = 0.0193, angle = 0.608 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97058297 -0.17611601 -0.16417019 87.72184690
0.16128728 0.98185271 -0.09975803 8.97119328
0.17875993 0.07034489 0.98137479 -68.10082994
Axis 0.33335764 -0.67205416 0.66122302
Axis point 353.94604677 0.00000000 515.21173924
Rotation angle (degrees) 14.78163058
Shift along axis -21.81621634
> select subtract #15
Nothing selected
> select add #16
2 models selected
> view matrix models
> #16,0.95288,-0.27481,-0.12847,72.137,0.26596,0.96049,-0.081986,-34.913,0.14592,0.043956,0.98832,-35.502
> view matrix models
> #16,0.90838,-0.40462,-0.10552,94.74,0.39664,0.91366,-0.088879,-55.601,0.13237,0.03888,0.99044,-32.298
> view matrix models
> #16,0.91073,-0.391,-0.133,97.62,0.3856,0.92035,-0.065292,-58.577,0.14793,0.0081796,0.98896,-31.282
> view matrix models
> #16,0.90578,-0.39443,-0.15491,103.3,0.38458,0.91866,-0.090377,-53.376,0.17796,0.022285,0.98379,-38.674
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.90578,-0.39443,-0.15491,149.38,0.38458,0.91866,-0.090377,-2.7693,0.17796,0.022285,0.98379,-42.114
> view matrix models
> #16,0.90578,-0.39443,-0.15491,148.94,0.38458,0.91866,-0.090377,-7.6583,0.17796,0.022285,0.98379,-41.331
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.90533,-0.39468,-0.15684,149.44,0.38066,0.91786,-0.11241,-2.5299,0.18832,0.042066,0.98121,-45.723
> view matrix models
> #16,0.90452,-0.39521,-0.16016,150.31,0.37331,0.91541,-0.15055,6.6147,0.20611,0.07639,0.97554,-53.078
> view matrix models
> #16,0.86579,-0.46207,-0.19207,173.66,0.43709,0.8852,-0.15929,-1.4827,0.24362,0.053959,0.96837,-56.831
> view matrix models
> #16,0.41225,-0.91095,-0.014791,298.03,0.88712,0.40505,-0.22124,-22.902,0.20753,0.078084,0.97511,-53.529
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.41225,-0.91095,-0.014791,299.78,0.88712,0.40505,-0.22124,-7.364,0.20753,0.078084,0.97511,-94.81
> view matrix models
> #16,0.41225,-0.91095,-0.014791,291.56,0.88712,0.40505,-0.22124,-10.477,0.20753,0.078084,0.97511,-95.654
> view matrix models
> #16,0.41225,-0.91095,-0.014791,291.75,0.88712,0.40505,-0.22124,-16.737,0.20753,0.078084,0.97511,-96.001
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.40956,-0.91212,-0.017093,292.93,0.90273,0.4079,-0.13675,-36.501,0.13171,0.040578,0.99046,-77.513
> view matrix models
> #16,0.41247,-0.91096,0.004129,288.12,0.90081,0.40719,-0.15079,-33.331,0.13569,0.065917,0.98856,-81.396
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.41247,-0.91096,0.004129,284.44,0.90081,0.40719,-0.15079,-29.522,0.13569,0.065917,0.98856,-86.786
> view matrix models
> #16,0.41247,-0.91096,0.004129,284.95,0.90081,0.40719,-0.15079,-28.033,0.13569,0.065917,0.98856,-86.328
> fitmap #16 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.6812, correlation about mean = 0.3109, overlap = 56.1
steps = 72, shift = 1.83, angle = 1.51 degrees
Position of volume sum (#16) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.42370495 -0.90527292 -0.03090379 289.88080487
0.88899787 0.42214416 -0.17741785 -23.88395361
0.17365743 0.04769942 0.98365027 -87.90646919
Axis 0.12369957 -0.11240424 0.98593291
Axis point 173.55247404 216.30678239 0.00000000
Rotation angle (degrees) 65.49644551
Shift along axis -48.12709233
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.41372,-0.90998,0.027802,280.21,0.90056,0.40458,-0.15906,-25.594,0.13349,0.090843,0.98688,-87.079
> view matrix models
> #16,0.40985,-0.91208,0.011668,284.38,0.90083,0.40272,-0.16224,-24.8,0.14328,0.077007,0.98668,-87.31
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.40985,-0.91208,0.011668,283.23,0.90083,0.40272,-0.16224,-25.096,0.14328,0.077007,0.98668,-87.987
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.4125,-0.91067,0.022656,280.39,0.90065,0.40398,-0.16007,-25.638,0.13662,0.086436,0.98685,-87.838
> view matrix models
> #16,0.41159,-0.91117,0.018847,281.37,0.90072,0.40354,-0.16082,-25.451,0.13893,0.08317,0.9868,-87.893
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.41159,-0.91117,0.018847,281.72,0.90072,0.40354,-0.16082,-25.352,0.13893,0.08317,0.9868,-88.701
> vop add #19
Opened volume sum as #17, grid size 44,28,210, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> select subtract #16
Nothing selected
> select add #17
2 models selected
> color #17 #e93323ff models
> vop add #19
Opened volume sum as #18, grid size 44,28,210, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> view matrix models
> #17,0.984,-0.04231,-0.17305,17.172,0.033256,0.99794,-0.054892,16.15,0.17501,0.048259,0.98338,-57.11
> view matrix models
> #17,0.984,-0.04231,-0.17305,20.812,0.033256,0.99794,-0.054892,1.1656,0.17501,0.048259,0.98338,-54.521
> view matrix models
> #17,0.984,-0.04231,-0.17305,7.8789,0.033256,0.99794,-0.054892,4.5225,0.17501,0.048259,0.98338,-63.512
> view matrix models
> #17,0.984,-0.04231,-0.17305,7.8667,0.033256,0.99794,-0.054892,1.9779,0.17501,0.048259,0.98338,-63.922
> view matrix models
> #17,0.984,-0.04231,-0.17305,8.8773,0.033256,0.99794,-0.054892,0.95522,0.17501,0.048259,0.98338,-71.125
> hide #!6 models
> show #!6 models
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7311, correlation about mean = 0.3457, overlap = 71.64
steps = 108, shift = 2.68, angle = 2.02 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.98293115 0.01404297 -0.18343704 4.72392037
-0.02196789 0.99890766 -0.04124195 9.13909713
0.18265751 0.04456772 0.98216595 -70.15384490
Axis 0.22716772 -0.96917822 -0.09533313
Axis point 383.80535101 0.00000000 -8.60322452
Rotation angle (degrees) 10.88676083
Shift along axis -1.09630609
> view matrix models
> #17,0.98545,-0.01051,-0.16966,5.3851,0.0046286,0.99938,-0.035025,2.1113,0.16992,0.03373,0.98488,-67.604
> view matrix models
> #17,0.98545,-0.01051,-0.16966,4.6209,0.0046286,0.99938,-0.035025,1.9202,0.16992,0.03373,0.98488,-67.517
> view matrix models
> #17,0.98545,-0.01051,-0.16966,2.2703,0.0046286,0.99938,-0.035025,11.533,0.16992,0.03373,0.98488,-13.536
> view matrix models
> #17,0.98545,-0.01051,-0.16966,4.0173,0.0046286,0.99938,-0.035025,6.4982,0.16992,0.03373,0.98488,-14.254
> view matrix models
> #17,0.98545,-0.01051,-0.16966,5.0441,0.0046286,0.99938,-0.035025,5.8815,0.16992,0.03373,0.98488,-16.214
> view matrix models
> #17,0.98545,-0.01051,-0.16966,5.4229,0.0046286,0.99938,-0.035025,3.9144,0.16992,0.03373,0.98488,-16.403
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.6987, correlation about mean = 0.2939, overlap = 63.34
steps = 80, shift = 2.72, angle = 3.09 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97842468 0.06027984 -0.19761449 0.19794883
-0.07251710 0.99583411 -0.05527833 24.23229840
0.19345908 0.06841611 0.97871999 -22.76572688
Axis 0.28690690 -0.90708771 -0.30802000
Axis point 142.20306018 0.00000000 7.12574203
Rotation angle (degrees) 12.44870402
Shift along axis -14.91172803
> view matrix models
> #17,0.98235,0.036093,-0.18352,-0.026798,-0.045896,0.99772,-0.049448,17.414,0.18132,0.056998,0.98177,-20.443
> ui mousemode right "rotate selected models"
> view matrix models
> #17,0.95579,0.19623,-0.219,-8.9431,-0.19015,0.98055,0.048715,32.284,0.2243,-0.0049194,0.97451,-20.089
> view matrix models
> #17,0.95119,0.21266,-0.22364,-9.2637,-0.22807,0.9726,-0.045194,59.337,0.2079,0.093993,0.97362,-29.584
> view matrix models
> #17,0.95468,0.21993,-0.20055,-15.365,-0.23307,0.97146,-0.04415,60.374,0.18511,0.088892,0.97869,-24.938
> ui mousemode right "translate selected models"
> view matrix models
> #17,0.95468,0.21993,-0.20055,-16.63,-0.23307,0.97146,-0.04415,60.222,0.18511,0.088892,0.97869,-25.646
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7364, correlation about mean = 0.3437, overlap = 71.01
steps = 52, shift = 2.62, angle = 1.63 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.94438025 0.25561604 -0.20689700 -17.49243115
-0.26592023 0.96371719 -0.02314308 64.29603770
0.19347445 0.07687397 0.97808897 -23.88743464
Axis 0.15038870 -0.60201075 -0.78419787
Axis point 177.81035027 93.82293085 0.00000000
Rotation angle (degrees) 19.42231681
Shift along axis -22.60509418
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7388, correlation about mean = 0.3489, overlap = 71.46
steps = 40, shift = 0.016, angle = 0.664 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.94126489 0.26677140 -0.20701069 -18.31948281
-0.27693099 0.96065577 -0.02120632 66.70633906
0.19320877 0.07728844 0.97810882 -23.88774613
Axis 0.14436381 -0.58660186 -0.79690485
Axis point 179.10156385 95.79895110 0.00000000
Rotation angle (degrees) 19.94596737
Shift along axis -22.73847216
> view matrix models
> #17,0.95035,0.2435,-0.19378,-19.069,-0.25117,0.96782,-0.015631,58.102,0.18373,0.063524,0.98092,-22.208
> select subtract #17
Nothing selected
> select add #18
2 models selected
> ui mousemode right "rotate selected models"
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.984,-0.04231,-0.17305,-19.035,0.033256,0.99794,-0.054892,22.959,0.17501,0.048259,0.98338,-41.613
> view matrix models
> #18,0.984,-0.04231,-0.17305,-27.838,0.033256,0.99794,-0.054892,15.11,0.17501,0.048259,0.98338,-42.632
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.98449,-0.034244,-0.17204,-29.213,0.02604,0.99842,-0.04972,15.625,0.17347,0.044469,0.98383,-41.878
> view matrix models
> #18,0.94585,0.22941,-0.22966,-45.144,-0.23745,0.97137,-0.0075958,68.206,0.22135,0.061718,0.97324,-52.521
> view matrix models
> #18,0.9032,0.352,-0.2456,-49.275,-0.35658,0.93387,0.027143,92.378,0.23892,0.063061,0.96899,-55.693
> view matrix models
> #18,0.88066,0.40828,-0.24031,-52.921,-0.41099,0.91071,0.041152,104.58,0.23565,0.062521,0.96982,-55.073
> view matrix models
> #18,0.838,0.49139,-0.23725,-55.378,-0.49281,0.86823,0.057585,124.82,0.23428,0.068662,0.96974,-55.581
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.838,0.49139,-0.23725,-54.486,-0.49281,0.86823,0.057585,123.58,0.23428,0.068662,0.96974,-57.774
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7255, correlation about mean = 0.3557, overlap = 78.4
steps = 72, shift = 4.4, angle = 3.72 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.83041003 0.52526479 -0.18578505 -63.27903244
-0.52596554 0.84905877 0.04959291 135.29508478
0.18379183 0.05653408 0.98133809 -49.06985473
Axis 0.00622904 -0.33165983 -0.94337848
Axis point 204.36655252 186.46583355 0.00000000
Rotation angle (degrees) 33.85979591
Shift along axis 1.02533180
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7273, correlation about mean = 0.3586, overlap = 78.65
steps = 44, shift = 0.0182, angle = 0.76 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.82328586 0.53643725 -0.18556794 -63.30515757
-0.53698991 0.84200527 0.05166193 138.24933520
0.18396257 0.05711557 0.98127243 -49.18206951
Axis 0.00480385 -0.32550132 -0.94552938
Axis point 203.71015708 185.12767255 0.00000000
Rotation angle (degrees) 34.58532492
Shift along axis 1.19864242
> view matrix models
> #18,0.83884,0.51578,-0.17413,-66.849,-0.51418,0.85573,0.057781,129.81,0.17881,0.041067,0.98303,-47.621
> color #18 #e93323ff models
> select subtract #18
Nothing selected
> vop add #14-18
Opened volume sum as #21, grid size 158,115,295, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> vop add #14-18
Opened volume sum as #22, grid size 158,115,295, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> show #!15-18 target m
> select add #22
2 models selected
> view matrix models
> #22,0.984,-0.04231,-0.17305,160.94,0.033256,0.99794,-0.054892,4.3987,0.17501,0.048259,0.98338,-45.045
> view matrix models
> #22,0.984,-0.04231,-0.17305,143.05,0.033256,0.99794,-0.054892,120.35,0.17501,0.048259,0.98338,-44.996
> ui mousemode right "rotate selected models"
> view matrix models
> #22,0.13707,-0.99056,-0.0029883,431.28,0.97626,0.1356,-0.1689,89.208,0.16771,0.020234,0.98563,-39.512
> ui mousemode right "translate selected models"
> view matrix models
> #22,0.13707,-0.99056,-0.0029883,358.24,0.97626,0.1356,-0.1689,24.24,0.16771,0.020234,0.98563,-43.096
> ui mousemode right "rotate selected models"
> view matrix models
> #22,-0.26082,-0.96537,0.0061361,431.7,0.93173,-0.25338,-0.26016,110.51,0.25271,-0.062137,0.96555,-43.452
> view matrix models
> #22,-0.22685,-0.96385,0.13978,401.31,0.95464,-0.24847,-0.16407,88.354,0.19287,0.09622,0.9765,-58.496
> ui mousemode right "translate selected models"
> view matrix models
> #22,-0.22685,-0.96385,0.13978,381.59,0.95464,-0.24847,-0.16407,145.6,0.19287,0.09622,0.9765,-59.255
> ui mousemode right "rotate selected models"
> view matrix models
> #22,-0.82214,-0.55088,0.1436,433.94,0.54956,-0.83381,-0.0523,298.95,0.14855,0.035921,0.98825,-42.986
> view matrix models
> #22,-0.82057,-0.54935,0.15773,430.91,0.54776,-0.83467,-0.057344,300.32,0.16315,0.03934,0.98582,-46
> view matrix models
> #22,-0.82001,-0.54984,0.15895,430.66,0.55483,-0.83183,-0.015142,291.08,0.14054,0.075771,0.98717,-47.501
> ui mousemode right "translate selected models"
> view matrix models
> #22,-0.82001,-0.54984,0.15895,427.29,0.55483,-0.83183,-0.015142,261.5,0.14054,0.075771,0.98717,-52.623
> view matrix models
> #22,-0.82001,-0.54984,0.15895,421.51,0.55483,-0.83183,-0.015142,270.17,0.14054,0.075771,0.98717,-57.988
> view matrix models
> #22,-0.82001,-0.54984,0.15895,421.75,0.55483,-0.83183,-0.015142,270.8,0.14054,0.075771,0.98717,-51.023
> view matrix models
> #22,-0.82001,-0.54984,0.15895,417.35,0.55483,-0.83183,-0.015142,270.8,0.14054,0.075771,0.98717,-54.383
> view matrix models
> #22,-0.82001,-0.54984,0.15895,416.28,0.55483,-0.83183,-0.015142,268.76,0.14054,0.075771,0.98717,-54.585
> fitmap #22 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 2680 points
correlation = 0.2927, correlation about mean = 0.1019, overlap = 50.23
steps = 2000, shift = 3.57, angle = 1.88 degrees
Position of volume sum (#22) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.81292087 -0.55946862 0.16172359 416.14809339
0.55900769 -0.82748582 -0.05270312 271.54892448
0.16330972 0.04756126 0.98542775 -51.17129626
Axis 0.08928560 -0.00141245 0.99600506
Axis point 168.48781561 200.11912315 0.00000000
Rotation angle (degrees) 145.84170268
Shift along axis -14.19438651
> ui mousemode right "rotate selected models"
> view matrix models
> #22,-0.91339,-0.36292,0.18441,398.72,0.36971,-0.92914,0.0026451,316.12,0.17039,0.070595,0.98285,-57.005
> view matrix models
> #22,-0.92523,-0.33196,0.1837,396.31,0.33939,-0.9406,0.0096125,322.74,0.1696,0.071239,0.98294,-56.966
> ui mousemode right "translate selected models"
> view matrix models
> #22,-0.92523,-0.33196,0.1837,396.04,0.33939,-0.9406,0.0096125,317.11,0.1696,0.071239,0.98294,-57.061
> view matrix models
> #22,-0.92523,-0.33196,0.1837,395.17,0.33939,-0.9406,0.0096125,313.67,0.1696,0.071239,0.98294,-56.725
> fitmap #22 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 2680 points
correlation = 0.5693, correlation about mean = 0.2109, overlap = 197.3
steps = 92, shift = 9.12, angle = 5.49 degrees
Position of volume sum (#22) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.94871956 -0.26542670 0.17169701 391.90479191
0.27084459 -0.96258554 0.00850134 322.21233347
0.16301657 0.05456859 0.98511312 -53.62348591
Axis 0.08557655 0.01612515 0.99620110
Axis point 176.06596362 188.59593942 0.00000000
Rotation angle (degrees) 164.38582181
Shift along axis -14.68619195
> view matrix models
> #22,-0.95305,-0.24041,0.18412,384.41,0.24881,-0.96826,0.023614,326.42,0.1726,0.068317,0.98262,-58.563
> select subtract #22
Nothing selected
> show #!19.5 models
> select add #19.5
2 models selected
> select subtract #19.5
Nothing selected
> select add #19.5
2 models selected
> show #!19.4 models
> show #!19.3 models
> show #!19.2 models
> show #!19.1 models
> hide #!19.1 models
> select subtract #19.5
Nothing selected
> close #19
> show #!14 models
> select add #14
2 models selected
> select subtract #14
Nothing selected
> select add #15
2 models selected
> select subtract #15
Nothing selected
> select add #16
2 models selected
> select subtract #16
Nothing selected
> select add #17
2 models selected
> select subtract #17
Nothing selected
> select add #18
2 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.46134,0.87004,-0.17378,-32.626,-0.86499,0.48464,0.13005,241.49,0.19737,0.090318,0.97616,-56.906
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.46134,0.87004,-0.17378,-49.365,-0.86499,0.48464,0.13005,270.36,0.19737,0.090318,0.97616,-84.636
> view matrix models
> #18,0.46134,0.87004,-0.17378,-51.504,-0.86499,0.48464,0.13005,268.76,0.19737,0.090318,0.97616,-84.934
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.47194,0.87154,-0.13301,-61.72,-0.85746,0.48883,0.16065,260.78,0.20503,0.038234,0.97801,-79.987
> view matrix models
> #18,0.47481,0.87103,-0.12591,-63.619,-0.86038,0.48951,0.14188,264.87,0.18521,0.040962,0.98184,-76.795
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.746, correlation about mean = 0.4108, overlap = 74.27
steps = 64, shift = 0.895, angle = 0.837 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.44895964 0.88531492 -0.12104843 -60.18722363
-0.87624953 0.46273750 0.13439033 275.01098152
0.17499141 0.04573280 0.98350725 -75.29819371
Axis -0.04957184 -0.16552728 -0.98495855
Axis point 202.09934082 192.00431950 0.00000000
Rotation angle (degrees) 63.41005291
Shift along axis 31.62737154
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 410 points
correlation = 0.7464, correlation about mean = 0.4112, overlap = 74.34
steps = 60, shift = 0.0225, angle = 0.369 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.44328113 0.88826182 -0.12038594 -59.49448017
-0.87914916 0.45702842 0.13498803 276.31626109
0.17492451 0.04599955 0.98350671 -75.32625995
Axis -0.04960005 -0.16459899 -0.98511269
Axis point 201.82976551 191.70683992 0.00000000
Rotation angle (degrees) 63.77430909
Shift along axis 31.67440591
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.46747,0.87701,-0.11104,-66.824,-0.86581,0.47958,0.14273,268.25,0.17843,0.029421,0.98351,-74.313
> view matrix models
> #18,0.46747,0.87701,-0.11104,-66.819,-0.86581,0.47958,0.14273,268.22,0.17843,0.029421,0.98351,-74.611
> select subtract #18
Nothing selected
> vop add #18,21,22
Opened volume sum as #19, grid size 292,251,337, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> close #14-18
> color #19 #e93323ff models
> show #!21 models
> hide #!21 models
> show #!22 models
> hide #!22 models
> close #21-22
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/S152_glycan_all.mrc
> models #19
> rename #19 is #33
Expected a keyword
> rename #19 id #33
> hide #!33 models
> show #!20 models
> color #20 #80e388ff models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T171_glycan.mrc
Opened T171_glycan.mrc as #14, grid size 10,12,11, pixel 1.07,1.07,1.07, shown
at level 1.07, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T171_glycan.mrc
Opened T171_glycan.mrc as #15, grid size 10,12,11, pixel 1.07,1.07,1.07, shown
at level 1.07, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T171_glycan.mrc
Opened T171_glycan.mrc as #16, grid size 10,12,11, pixel 1.07,1.07,1.07, shown
at level 1.07, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T171_glycan.mrc
Opened T171_glycan.mrc as #17, grid size 10,12,11, pixel 1.07,1.07,1.07, shown
at level 1.07, step 1, values float32
> rename #20 id #18
> rename #14-18 id #14
> select add #14.1
2 models selected
> select subtract #14.1
Nothing selected
> color #14 #80e388ff models
> select add #14
11 models selected
> select subtract #14
Nothing selected
> select add #14
11 models selected
> select subtract #14.1
9 models selected
> volume #14.1 level 0.055
> volume #14.2 level 0.055
> volume #14.3 level 0.055
> volume #14.4 level 0.055
> ui tool show "Volume Viewer"
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> color #5 #a9fab5ff
> color #5 #fff6b6ff
> select #5/B-z,1-9,0,AA-Al:171
693 atoms, 594 bonds, 99 residues, 1 model selected
> select #5/B-z,1-9,0,AA-Al:171
693 atoms, 594 bonds, 99 residues, 1 model selected
> color sel red
> hide #!6 models
> select add #5
216018 atoms, 217305 bonds, 28314 residues, 1 model selected
> select subtract #5
Nothing selected
> show #!6 models
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> select add #14
11 models selected
> select subtract #14.1
9 models selected
> view matrix models #14,1,0,0,-2.5434,0,1,0,3.1423,0,0,1,104
> fitmap #14.2 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9405, correlation about mean = 0.6009, overlap = 40.12
steps = 60, shift = 2.54, angle = 12.1 degrees
Position of T171_glycan.mrc (#14.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97878912 0.11240323 0.17128157 -37.18280660
-0.11984746 0.99221929 0.03372653 18.28294926
-0.16615791 -0.05353882 0.98464468 46.44357606
Axis -0.20835359 0.80566606 -0.55451869
Axis point 245.34146373 0.00000000 251.45396194
Rotation angle (degrees) 12.08815782
Shift along axis -3.27670824
> select subtract #14.2
7 models selected
> view matrix models #14,1,0,0,-1.943,0,1,0,3.0475,0,0,1,103.7
> fitmap #14.2 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9405, correlation about mean = 0.6002, overlap = 40.14
steps = 52, shift = 0.677, angle = 0.309 degrees
Position of T171_glycan.mrc (#14.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97805798 0.11735475 0.17213496 -38.43450920
-0.12507336 0.99154176 0.03466389 19.47552925
-0.16661103 -0.05543279 0.98446329 47.11485826
Axis -0.21140043 0.79482446 -0.56882680
Axis point 247.74172852 0.00000000 258.78527196
Rotation angle (degrees) 12.30377963
Shift along axis -3.19549544
> select add #14.2
9 models selected
> select subtract #14.2
7 models selected
> select add #14.1
9 models selected
> select subtract #14.1
7 models selected
> select add #14.2
9 models selected
> select add #14.1
11 models selected
> select subtract #14
Nothing selected
> select add #14
11 models selected
> view matrix models #14,1,0,0,0.25349,0,1,0,-0.049845,0,0,1,-0.49267
> fitmap #14.2 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.999, correlation about mean = 0.9887, overlap = 50.94
steps = 76, shift = 3.71, angle = 10.8 degrees
Position of T171_glycan.mrc (#14.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99956299 0.02854736 0.00767301 -5.22420727
-0.02876317 0.99914598 0.02966474 1.90889646
-0.00681961 -0.02987248 0.99953045 6.15142958
Axis -0.70962104 0.17273673 -0.68308125
Axis point 0.00000000 203.08507176 -59.46304156
Rotation angle (degrees) 2.40426388
Shift along axis -0.16498229
> select subtract #14.1
9 models selected
> select add #14.1
11 models selected
> fitmap #14.1 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9989, correlation about mean = 0.9877, overlap = 50.9
steps = 52, shift = 1.28, angle = 2.58 degrees
Position of T171_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99966219 0.02545092 0.00526737 -4.44701476
-0.02559974 0.99920893 0.03043298 1.09450761
-0.00448865 -0.03055755 0.99952293 5.74194781
Axis -0.76112240 0.12174885 -0.63707920
Axis point 0.00000000 185.48018440 -31.70365198
Rotation angle (degrees) 2.29623743
Shift along axis -0.14009796
> fitmap #14.1 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9991, correlation about mean = 0.9904, overlap = 51.02
steps = 40, shift = 0.0231, angle = 0.299 degrees
Position of T171_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99952839 0.02983351 0.00727645 -5.34718684
-0.03002903 0.99914463 0.02843003 2.36986152
-0.00642205 -0.02863512 0.99956930 5.89403481
Axis -0.68071813 0.16340651 -0.71408763
Axis point 74.65051396 184.55971732 0.00000000
Rotation angle (degrees) 2.40227941
Shift along axis -0.18167956
> fitmap #14.1 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9991, correlation about mean = 0.9905, overlap = 51.05
steps = 44, shift = 0.00674, angle = 0.28 degrees
Position of T171_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99964614 0.02631614 0.00388104 -4.36193312
-0.02641666 0.99924064 0.02864085 1.53630347
-0.00312438 -0.02873324 0.99958223 5.18397982
Axis -0.73330216 0.08953667 -0.67398155
Axis point 0.00000000 177.43623603 -49.42901301
Rotation angle (degrees) 2.24200387
Shift along axis -0.15773627
> select subtract #14.1
9 models selected
> view matrix models #14,1,0,0,-1.0544,0,1,0,1.5484,0,0,1,52.326
> fitmap #14.2 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9698, correlation about mean = 0.6965, overlap = 45.58
steps = 64, shift = 1.55, angle = 6.46 degrees
Position of T171_glycan.mrc (#14.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99015350 0.13998141 0.00111793 -17.15892448
-0.13997962 0.99000227 0.01735560 27.86143609
0.00132271 -0.01734119 0.99984876 2.06037829
Axis -0.12299335 -0.00072588 -0.99240723
Axis point 189.33608928 135.85824782 0.00000000
Rotation angle (degrees) 8.10869589
Shift along axis 0.04547521
> select subtract #14.2
7 models selected
> view matrix models #14,1,0,0,-2.4746,0,1,0,3.1448,0,0,1,104.47
> fitmap #14.3 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9406, correlation about mean = 0.6027, overlap = 40.16
steps = 56, shift = 2.54, angle = 12.4 degrees
Position of T171_glycan.mrc (#14.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97795130 0.11603715 0.17362786 -37.92759339
-0.12391232 0.99166904 0.03518891 19.01573563
-0.16809815 -0.05592767 0.98418246 46.79428504
Axis -0.21319747 0.79958138 -0.56144141
Axis point 244.59455625 0.00000000 253.16355334
Rotation angle (degrees) 12.33871730
Shift along axis -2.98155414
> select subtract #14.3
5 models selected
> view matrix models #14,1,0,0,-3.9686,0,1,0,4.6923,0,0,1,154.37
> select subtract #14.4
3 models selected
> select subtract #14.5
1 model selected
> select add #14.1
3 models selected
> view matrix models #14,1,0,0,44.861,0,1,0,-2.9127,0,0,1,145.09
> select add #14
11 models selected
> select subtract #14
Nothing selected
> hide #!14.1 models
> show #!14.1 models
> select add #14.1
2 models selected
> view matrix models
> #14.1,0.99987,0.00080429,0.016055,-10.914,-0.0014413,0.99921,0.039708,-3.6888,-0.01601,-0.039726,0.99908,6.4825
> view matrix models
> #14.1,0.99987,0.00080429,0.016055,-44.861,-0.0014413,0.99921,0.039708,4.8793,-0.01601,-0.039726,0.99908,-31.474
> view matrix models
> #14.1,0.99987,0.00080429,0.016055,-51.137,-0.0014413,0.99921,0.039708,2.5458,-0.01601,-0.039726,0.99908,-32.648
> fitmap #14.1 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.8276, correlation about mean = 0.3324, overlap = 29.94
steps = 76, shift = 1.58, angle = 33.9 degrees
Position of T171_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.87933763 0.43181063 0.20076081 -111.59764718
-0.34273453 0.86658289 -0.36272185 158.93716716
-0.33060304 0.25014732 0.91001536 8.98654440
Axis 0.54644795 0.47377597 -0.69060189
Axis point 313.78621569 356.38937134 0.00000000
Rotation angle (degrees) 34.10944136
Shift along axis 8.11218098
> view matrix models
> #14.1,0.88334,0.41307,0.22154,-106.78,-0.32425,0.87981,-0.34757,144.59,-0.33849,0.23519,0.91111,15.153
> view matrix models
> #14.1,0.88334,0.41307,0.22154,-112.02,-0.32425,0.87981,-0.34757,144.51,-0.33849,0.23519,0.91111,15.312
> fitmap #14.1 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9407, correlation about mean = 0.6021, overlap = 40.14
steps = 60, shift = 0.753, angle = 27.7 degrees
Position of T171_glycan.mrc (#14.1) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97848096 0.11552369 0.17096573 -84.19184344
-0.12306961 0.99180921 0.03418115 26.65006133
-0.16561665 -0.05448629 0.98468389 4.81586513
Axis -0.21011693 0.79760565 -0.56539906
Axis point 110.03674351 0.00000000 461.78003088
Rotation angle (degrees) 12.18069667
Shift along axis 36.22348581
> select subtract #14.1
Nothing selected
> select add #14.2
2 models selected
> view matrix models
> #14.2,0.9933,0.1148,0.01358,-60.444,-0.11515,0.99294,0.028361,30.148,-0.010228,-0.029734,0.99951,-87.259
> view matrix models
> #14.2,0.9933,0.1148,0.01358,-63.378,-0.11515,0.99294,0.028361,29.33,-0.010228,-0.029734,0.99951,-86.965
> view matrix models
> #14.2,0.9933,0.1148,0.01358,-61.425,-0.11515,0.99294,0.028361,28.65,-0.010228,-0.029734,0.99951,-86.987
> view matrix models
> #14.2,0.9933,0.1148,0.01358,-63.021,-0.11515,0.99294,0.028361,28.101,-0.010228,-0.029734,0.99951,-87.014
> view matrix models
> #14.2,0.9933,0.1148,0.01358,-60.354,-0.11515,0.99294,0.028361,26.175,-0.010228,-0.029734,0.99951,-86.657
> fitmap #14.2 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9703, correlation about mean = 0.7033, overlap = 45.63
steps = 52, shift = 1.69, angle = 0.0955 degrees
Position of T171_glycan.mrc (#14.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99011833 0.14023432 0.00015393 -61.61701155
-0.14021876 0.98999095 0.01601917 34.71818912
0.00209405 -0.01588246 0.99987167 -91.60017991
Axis -0.11301878 -0.00687332 -0.99356908
Axis point 225.51524923 376.50866024 0.00000000
Rotation angle (degrees) 8.11348063
Shift along axis 97.73635659
> fitmap #14.2 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.97, correlation about mean = 0.6994, overlap = 45.58
steps = 40, shift = 0.012, angle = 0.115 degrees
Position of T171_glycan.mrc (#14.2) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99019843 0.13966641 0.00059973 -61.61486572
-0.13965469 0.99003855 0.01789540 34.30224643
0.00190563 -0.01780375 0.99983969 -91.29203833
Axis -0.12677425 -0.00463747 -0.99192075
Axis point 222.65939392 367.64182019 0.00000000
Rotation angle (degrees) 8.09403109
Shift along axis 98.20657029
> select subtract #14.2
Nothing selected
> select add #14.3
2 models selected
> view matrix models
> #14.3,0.97851,0.090329,0.18537,-69.917,-0.10126,0.99359,0.050329,30.487,-0.17964,-0.068018,0.98138,-96.312
> view matrix models
> #14.3,0.97851,0.090329,0.18537,-83.301,-0.10126,0.99359,0.050329,28.425,-0.17964,-0.068018,0.98138,-95.381
> view matrix models
> #14.3,0.97851,0.090329,0.18537,-76.419,-0.10126,0.99359,0.050329,21.512,-0.17964,-0.068018,0.98138,-95.091
> view matrix models
> #14.3,0.97851,0.090329,0.18537,-80.302,-0.10126,0.99359,0.050329,19.248,-0.17964,-0.068018,0.98138,-94.091
> fitmap #14.3 inMap #6
Fit map T171_glycan.mrc in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc
zone using 64 points
correlation = 0.9991, correlation about mean = 0.9903, overlap = 51.05
steps = 60, shift = 0.666, angle = 11 degrees
Position of T171_glycan.mrc (#14.3) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99961401 0.02722431 0.00553752 -47.33941077
-0.02737089 0.99922218 0.02838781 7.32321389
-0.00476038 -0.02852842 0.99958165 -140.58868043
Axis -0.71559404 0.12947301 -0.68641234
Axis point 0.00000000 -1772.52692233 292.42208160
Rotation angle (degrees) 2.27916922
Shift along axis 131.32576457
> select subtract #14.3
Nothing selected
> select add #14.4
2 models selected
> view matrix models #14.4,1,0,0,-47.355,0,1,0,-12.704,0,0,1,-205.95
> hide #!6 models
> show #!6 models
> view matrix models #14.4,1,0,0,-51.669,0,1,0,-10.601,0,0,1,-195.49
> view matrix models #14.4,1,0,0,-55.365,0,1,0,-4.5223,0,0,1,-194.26
> view matrix models #14.4,1,0,0,-42.934,0,1,0,-1.5721,0,0,1,-194.91
> view matrix models #14.4,1,0,0,-45.556,0,1,0,2.4417,0,0,1,-197.25
> view matrix models #14.4,1,0,0,-44.685,0,1,0,2.8744,0,0,1,-197.09
> view matrix models #14.4,1,0,0,-44.705,0,1,0,3.1779,0,0,1,-197.5
> select subtract #14.4
Nothing selected
> select add #14.5
3 models selected
> view matrix models
> #14.5,0.9996,-0.025113,0.012944,-39.489,0.02497,0.99963,0.011123,7.1774,-0.013218,-0.010796,0.99985,-245.97
> view matrix models
> #14.5,0.9996,-0.025113,0.012944,-46.327,0.02497,0.99963,0.011123,5.9319,-0.013218,-0.010796,0.99985,-248.27
> view matrix models
> #14.5,0.9996,-0.025113,0.012944,-35.466,0.02497,0.99963,0.011123,-5.4782,-0.013218,-0.010796,0.99985,-246.26
> view matrix models
> #14.5,0.9996,-0.025113,0.012944,-44.023,0.02497,0.99963,0.011123,-4.8792,-0.013218,-0.010796,0.99985,-246.87
> view matrix models
> #14.5,0.9996,-0.025113,0.012944,-41.667,0.02497,0.99963,0.011123,-8.0395,-0.013218,-0.010796,0.99985,-246.64
> view matrix models
> #14.5,0.9996,-0.025113,0.012944,-42.653,0.02497,0.99963,0.011123,-8.374,-0.013218,-0.010796,0.99985,-246.42
> view matrix models
> #14.5,0.9996,-0.025113,0.012944,-42.912,0.02497,0.99963,0.011123,-8.1195,-0.013218,-0.010796,0.99985,-246.32
> select subtract #14.5
Nothing selected
> vop add #14
Opened volume sum as #15, grid size 51,24,207, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> show #!14.1 models
> show #!14.2 models
> show #!14.3 models
> show #!14.4 models
> show #!14.5 models
> select add #15
2 models selected
> view matrix models
> #15,0.97905,0.089831,0.18274,-79.42,-0.10037,0.99373,0.049261,-9.7925,-0.17717,-0.066571,0.98193,178.13
> view matrix models
> #15,0.97905,0.089831,0.18274,-83.031,-0.10037,0.99373,0.049261,-7.1544,-0.17717,-0.066571,0.98193,178.31
> view matrix models
> #15,0.97905,0.089831,0.18274,-73.603,-0.10037,0.99373,0.049261,-7.0216,-0.17717,-0.066571,0.98193,179.23
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.97042,0.15248,0.1872,-80.635,-0.16519,0.98477,0.054185,9.4554,-0.17609,-0.083505,0.98083,181.42
> view matrix models
> #15,0.959,0.25183,0.12998,-88.999,-0.25409,0.96718,0.00087943,35.919,-0.12549,-0.03387,0.99152,161.78
> view matrix models
> #15,0.92585,0.3574,0.12273,-95.645,-0.35913,0.93325,-0.0084676,66.264,-0.11757,-0.036237,0.9924,160.17
> view matrix models
> #15,0.80365,0.58996,0.078011,-97.065,-0.58734,0.80743,-0.055628,140.96,-0.095807,-0.001113,0.9954,149.86
> view matrix models
> #15,0.79339,0.59373,0.13427,-98.063,-0.58702,0.80463,-0.08934,143.02,-0.16108,-0.0079368,0.98691,166.84
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.79339,0.59373,0.13427,-103.87,-0.58702,0.80463,-0.08934,157.33,-0.16108,-0.0079368,0.98691,165.37
> view matrix models
> #15,0.79339,0.59373,0.13427,-99.576,-0.58702,0.80463,-0.08934,157.61,-0.16108,-0.0079368,0.98691,166.63
> hide #!6 models
> show #!6 models
> hide #!6 models
> show #!6 models
> view matrix models
> #15,0.79339,0.59373,0.13427,-98.802,-0.58702,0.80463,-0.08934,158.1,-0.16108,-0.0079368,0.98691,167.04
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.8158, correlation about mean = 0.4796, overlap = 139.2
steps = 64, shift = 2.83, angle = 2.01 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.77774438 0.61212252 0.14289751 -97.44872720
-0.60772422 0.79032511 -0.07782990 166.54970448
-0.16057693 -0.02631051 0.98667259 168.18159640
Axis 0.04095065 0.24121941 -0.96960623
Axis point 242.09360972 238.61129875 0.00000000
Rotation angle (degrees) 38.97950317
Shift along axis -126.88549072
> view matrix models
> #15,0.79065,0.59166,0.15753,-98.283,-0.58981,0.80505,-0.063388,159.86,-0.16432,-0.042793,0.98548,171.53
> view matrix models
> #15,0.79065,0.59166,0.15753,-98.101,-0.58981,0.80505,-0.063388,159.55,-0.16432,-0.042793,0.98548,172.59
> view matrix models
> #15,0.79065,0.59166,0.15753,-98.555,-0.58981,0.80505,-0.063388,159.54,-0.16432,-0.042793,0.98548,172.44
> select subtract #15
Nothing selected
> vop add #14
Opened volume sum as #16, grid size 51,24,207, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> hide #!14 models
> show #!14 models
> show #!14.1 models
> show #!14.2 models
> show #!14.3 models
> show #!14.4 models
> show #!14.5 models
> select add #16
2 models selected
> view matrix models
> #16,0.97905,0.089831,0.18274,-47.138,-0.10037,0.99373,0.049261,-1.2866,-0.17717,-0.066571,0.98193,152.18
> view matrix models
> #16,0.97905,0.089831,0.18274,-33.843,-0.10037,0.99373,0.049261,4.012,-0.17717,-0.066571,0.98193,154.68
> view matrix models
> #16,0.97905,0.089831,0.18274,-39.816,-0.10037,0.99373,0.049261,4.8435,-0.17717,-0.066571,0.98193,154.24
> view matrix models
> #16,0.97905,0.089831,0.18274,-34.656,-0.10037,0.99373,0.049261,7.4053,-0.17717,-0.066571,0.98193,153.73
> view matrix models
> #16,0.97905,0.089831,0.18274,-39.907,-0.10037,0.99373,0.049261,13.728,-0.17717,-0.066571,0.98193,155.01
> view matrix models
> #16,0.97905,0.089831,0.18274,-37.961,-0.10037,0.99373,0.049261,14.956,-0.17717,-0.066571,0.98193,154.47
> fitmap #15 inMap #14.1
Fit map volume sum in map T171_glycan.mrc using 574 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to T171_glycan.mrc (#14.1) coordinates:
Matrix rotation and translation
0.86239467 0.50604269 -0.01400842 -58.19460885
-0.50414934 0.85599994 -0.11444450 127.77366943
-0.04592259 0.10575866 0.99333087 164.02969079
Axis 0.21287883 0.03085265 -0.97659138
Axis point 233.07675322 107.43783364 0.00000000
Rotation angle (degrees) 31.14482216
Shift along axis -168.63622504
> fitmap #15 inMap #14.1
Fit map volume sum in map T171_glycan.mrc using 574 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to T171_glycan.mrc (#14.1) coordinates:
Matrix rotation and translation
0.86239467 0.50604269 -0.01400842 -58.19460885
-0.50414934 0.85599994 -0.11444450 127.77366943
-0.04592259 0.10575866 0.99333087 164.02969079
Axis 0.21287883 0.03085265 -0.97659138
Axis point 233.07675322 107.43783364 0.00000000
Rotation angle (degrees) 31.14482216
Shift along axis -168.63622504
> fitmap #15 inMap #14.1
Fit map volume sum in map T171_glycan.mrc using 574 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to T171_glycan.mrc (#14.1) coordinates:
Matrix rotation and translation
0.86239467 0.50604269 -0.01400842 -58.19460885
-0.50414934 0.85599994 -0.11444450 127.77366943
-0.04592259 0.10575866 0.99333087 164.02969079
Axis 0.21287883 0.03085265 -0.97659138
Axis point 233.07675322 107.43783364 0.00000000
Rotation angle (degrees) 31.14482216
Shift along axis -168.63622504
> fitmap #15 inMap #14.1
Fit map volume sum in map T171_glycan.mrc using 574 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to T171_glycan.mrc (#14.1) coordinates:
Matrix rotation and translation
0.86239467 0.50604269 -0.01400842 -58.19460885
-0.50414934 0.85599994 -0.11444450 127.77366943
-0.04592259 0.10575866 0.99333087 164.02969079
Axis 0.21287883 0.03085265 -0.97659138
Axis point 233.07675322 107.43783364 0.00000000
Rotation angle (degrees) 31.14482216
Shift along axis -168.63622504
> fitmap #15 inMap #14.1
Fit map volume sum in map T171_glycan.mrc using 574 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to T171_glycan.mrc (#14.1) coordinates:
Matrix rotation and translation
0.86239467 0.50604269 -0.01400842 -58.19460885
-0.50414934 0.85599994 -0.11444450 127.77366943
-0.04592259 0.10575866 0.99333087 164.02969079
Axis 0.21287883 0.03085265 -0.97659138
Axis point 233.07675322 107.43783364 0.00000000
Rotation angle (degrees) 31.14482216
Shift along axis -168.63622504
> fitmap #15 inMap #14.1
Fit map volume sum in map T171_glycan.mrc using 574 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to T171_glycan.mrc (#14.1) coordinates:
Matrix rotation and translation
0.86239467 0.50604269 -0.01400842 -58.19460885
-0.50414934 0.85599994 -0.11444450 127.77366943
-0.04592259 0.10575866 0.99333087 164.02969079
Axis 0.21287883 0.03085265 -0.97659138
Axis point 233.07675322 107.43783364 0.00000000
Rotation angle (degrees) 31.14482216
Shift along axis -168.63622504
> fitmap #15 inMap #14.1
Fit map volume sum in map T171_glycan.mrc using 574 points
correlation = 0, correlation about mean = 0, overlap = 0
steps = 24, shift = 0, angle = 0 degrees
Position of volume sum (#15) relative to T171_glycan.mrc (#14.1) coordinates:
Matrix rotation and translation
0.86239467 0.50604269 -0.01400842 -58.19460885
-0.50414934 0.85599994 -0.11444450 127.77366943
-0.04592259 0.10575866 0.99333087 164.02969079
Axis 0.21287883 0.03085265 -0.97659138
Axis point 233.07675322 107.43783364 0.00000000
Rotation angle (degrees) 31.14482216
Shift along axis -168.63622504
> select subtract #16
Nothing selected
> fitmap #16 inMap #14.1
Fit map volume sum in map T171_glycan.mrc using 574 points
correlation = 0.3694, correlation about mean = 0.3303, overlap = 22.84
steps = 2000, shift = 220, angle = 144 degrees
Position of volume sum (#16) relative to T171_glycan.mrc (#14.1) coordinates:
Matrix rotation and translation
-0.55008826 -0.71020119 -0.43933720 520.76285474
-0.53544455 0.70366458 -0.46707098 221.02995045
0.64086039 -0.02168955 -0.76735098 286.19303069
Axis 0.37699118 -0.91432857 0.14792200
Axis point 255.75104212 0.00000000 251.61116281
Rotation angle (degrees) 143.79292062
Shift along axis 36.56324894
> hide #!14 models
> show #!14 models
> select add #16
2 models selected
> view matrix models
> #16,-0.46955,-0.63607,-0.61232,499.73,-0.4453,0.76947,-0.45785,199.87,0.76238,0.057685,-0.64455,177.66
> view matrix models
> #16,-0.46955,-0.63607,-0.61232,507.07,-0.4453,0.76947,-0.45785,181.68,0.76238,0.057685,-0.64455,-18.465
> close #16
> vop add #14
Opened volume sum as #16, grid size 51,24,207, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> show #!14.1 models
> select add #16
2 models selected
> view matrix models
> #16,0.97905,0.089831,0.18274,-11.694,-0.10037,0.99373,0.049261,40.091,-0.17717,-0.066571,0.98193,150.79
> view matrix models
> #16,0.97905,0.089831,0.18274,-43.122,-0.10037,0.99373,0.049261,29.877,-0.17717,-0.066571,0.98193,153.05
> view matrix models
> #16,0.97905,0.089831,0.18274,-33.666,-0.10037,0.99373,0.049261,16.339,-0.17717,-0.066571,0.98193,154.33
> view matrix models
> #16,0.97905,0.089831,0.18274,-36.805,-0.10037,0.99373,0.049261,13.865,-0.17717,-0.066571,0.98193,155.71
> view matrix models
> #16,0.97905,0.089831,0.18274,-38.699,-0.10037,0.99373,0.049261,14.758,-0.17717,-0.066571,0.98193,155.05
> fitmap #16 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.828, correlation about mean = 0.543, overlap = 151
steps = 72, shift = 1.79, angle = 0.523 degrees
Position of volume sum (#16) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97839024 0.11488979 0.17190946 -41.32496560
-0.12098195 0.99233082 0.02535564 21.55855372
-0.16767795 -0.04560565 0.98478639 149.66608575
Axis -0.16915185 0.80948137 -0.56225222
Axis point 657.72474925 0.00000000 381.81763614
Rotation angle (degrees) 12.10806332
Shift along axis -59.70864745
> fitmap #16 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.8269, correlation about mean = 0.5392, overlap = 151.1
steps = 60, shift = 0.0733, angle = 0.0552 degrees
Position of volume sum (#16) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97832690 0.11485034 0.17229589 -41.35081268
-0.12081300 0.99237304 0.02449406 21.61264103
-0.16816865 -0.04477878 0.98474066 149.66749415
Axis -0.16500454 0.81097003 -0.56133867
Axis point 656.37579991 0.00000000 379.70331554
Rotation angle (degrees) 12.11719008
Shift along axis -59.66387658
> select subtract #16
Nothing selected
> hide #!14.1 models
> vop add #14
Opened volume sum as #17, grid size 51,24,207, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> select add #17
2 models selected
> view matrix models
> #17,0.97905,0.089831,0.18274,34.485,-0.10037,0.99373,0.049261,73.029,-0.17717,-0.066571,0.98193,116.4
> view matrix models
> #17,0.97905,0.089831,0.18274,-9.1018,-0.10037,0.99373,0.049261,48.615,-0.17717,-0.066571,0.98193,155.72
> view matrix models
> #17,0.97905,0.089831,0.18274,-18.214,-0.10037,0.99373,0.049261,44.083,-0.17717,-0.066571,0.98193,184.12
> view matrix models
> #17,0.97905,0.089831,0.18274,-12.596,-0.10037,0.99373,0.049261,43.522,-0.17717,-0.066571,0.98193,181.14
> view matrix models
> #17,0.97905,0.089831,0.18274,-14.609,-0.10037,0.99373,0.049261,35.883,-0.17717,-0.066571,0.98193,182.42
> view matrix models
> #17,0.97905,0.089831,0.18274,-12.796,-0.10037,0.99373,0.049261,37.632,-0.17717,-0.066571,0.98193,183.35
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.7699, correlation about mean = 0.468, overlap = 119.1
steps = 96, shift = 2.32, angle = 2 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.97960061 0.09688046 0.17605911 -14.02817606
-0.09997145 0.99495182 0.00875106 39.19080495
-0.17432253 -0.02617343 0.98434070 177.04029437
Axis -0.08657372 0.86855489 -0.48797274
Axis point 854.13865955 0.00000000 203.79064154
Rotation angle (degrees) 11.63661038
Shift along axis -51.13700161
> ui mousemode right "rotate selected models"
> view matrix models
> #17,0.94511,-0.26291,0.19403,44.216,0.25324,0.96461,0.073488,-42.075,-0.20648,-0.020318,0.97824,183.24
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.8141, correlation about mean = 0.5192, overlap = 135.9
steps = 116, shift = 1.25, angle = 2.24 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.95728223 -0.24829849 0.14818428 42.40677210
0.23957994 0.96802734 0.07432712 -41.21554880
-0.16190175 -0.03565005 0.98616271 175.52426549
Axis -0.18689291 0.52695369 0.82909037
Axis point 450.99029477 180.42341310 0.00000000
Rotation angle (degrees) 17.11107818
Shift along axis 115.88126776
> ui mousemode right "translate selected models"
> view matrix models
> #17,0.94879,-0.273,0.15898,47.334,0.26165,0.96106,0.088839,-43.694,-0.17704,-0.042692,0.98328,179.65
> fitmap #17 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.8149, correlation about mean = 0.5211, overlap = 136.2
steps = 76, shift = 0.568, angle = 0.428 degrees
Position of volume sum (#17) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.95555471 -0.25548136 0.14712057 43.91878454
0.24668234 0.96614741 0.07554470 -42.69720011
-0.16144042 -0.03589505 0.98622945 175.45490601
Axis -0.18578528 0.51441332 0.83717547
Axis point 441.28306950 180.04715686 0.00000000
Rotation angle (degrees) 17.45252449
Shift along axis 116.76307117
> vop add #14
Opened volume sum as #18, grid size 51,24,207, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> select subtract #17
Nothing selected
> select add #18
2 models selected
> view matrix models
> #18,0.97905,0.089831,0.18274,22.9,-0.10037,0.99373,0.049261,141.38,-0.17717,-0.066571,0.98193,106.74
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.87366,-0.46229,0.1517,127.75,0.43891,0.88338,0.1643,22.348,-0.20996,-0.076956,0.97468,116.4
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.87366,-0.46229,0.1517,98.549,0.43891,0.88338,0.1643,-55.618,-0.20996,-0.076956,0.97468,224.5
> view matrix models
> #18,0.87366,-0.46229,0.1517,101.82,0.43891,0.88338,0.1643,-45.013,-0.20996,-0.076956,0.97468,222.63
> view matrix models
> #18,0.87366,-0.46229,0.1517,101.62,0.43891,0.88338,0.1643,-49.601,-0.20996,-0.076956,0.97468,222
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.7141, correlation about mean = 0.3746, overlap = 100.8
steps = 68, shift = 3.95, angle = 3.2 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.88512449 -0.44500947 0.13609262 97.63428474
0.43514448 0.89513262 0.09688587 -46.46497654
-0.16493608 -0.02653610 0.98594722 203.56449603
Axis -0.13152925 0.32080250 0.93796898
Axis point 274.50922259 196.76900130 0.00000000
Rotation angle (degrees) 27.98112943
Shift along axis 163.18933914
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.79609,-0.57464,0.18984,134.04,0.55829,0.8184,0.1361,-64.39,-0.23357,-0.0023636,0.97234,215.78
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6838, correlation about mean = 0.2871, overlap = 100.7
steps = 80, shift = 5.65, angle = 1.77 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.81029159 -0.56588103 0.15233578 126.17059026
0.55169235 0.82426406 0.12737468 -66.74117560
-0.19764382 -0.01916815 0.98008647 212.44214464
Axis -0.12416517 0.29653636 0.94691562
Axis point 264.41203802 170.67989895 0.00000000
Rotation angle (degrees) 36.16498795
Shift along axis 165.70760770
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.79354,-0.58663,0.16172,132.15,0.56958,0.80959,0.1419,-65.659,-0.21417,-0.020497,0.97658,213.94
> view matrix models
> #18,0.79354,-0.58663,0.16172,136.67,0.56958,0.80959,0.1419,-62.137,-0.21417,-0.020497,0.97658,213.19
> view matrix models
> #18,0.79354,-0.58663,0.16172,135.79,0.56958,0.80959,0.1419,-67.464,-0.21417,-0.020497,0.97658,213.71
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6843, correlation about mean = 0.2848, overlap = 101
steps = 76, shift = 3.91, angle = 0.673 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.80382148 -0.57550471 0.15055015 129.18406682
0.56122405 0.81757627 0.12882782 -68.12307707
-0.19722725 -0.01906220 0.98017245 212.34191392
Axis -0.12345737 0.29032171 0.94893181
Axis point 262.56646830 170.52840301 0.00000000
Rotation angle (degrees) 36.79486016
Shift along axis 165.77166381
> view matrix models
> #18,0.78684,-0.59608,0.1599,141.12,0.57895,0.80267,0.14331,-66.654,-0.21377,-0.020193,0.97668,214.15
> ui mousemode right "rotate selected models"
> view matrix models
> #18,0.78667,-0.60925,0.099777,146.14,0.59359,0.79085,0.14903,-68.771,-0.1697,-0.058008,0.98379,208.61
> ui mousemode right "translate selected models"
> view matrix models
> #18,0.78667,-0.60925,0.099777,146.05,0.59359,0.79085,0.14903,-69.76,-0.1697,-0.058008,0.98379,207.41
> fitmap #18 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.7419, correlation about mean = 0.417, overlap = 107.1
steps = 60, shift = 0.828, angle = 1.62 degrees
Position of volume sum (#18) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.79580485 -0.59526943 0.11112575 141.80661550
0.58377282 0.80292755 0.12048501 -69.87393971
-0.16094697 -0.03101037 0.98647576 203.31152557
Axis -0.12423018 0.22310675 0.96684551
Axis point 245.61558495 188.06265085 0.00000000
Rotation angle (degrees) 37.57046225
Shift along axis 163.36482635
> vop add #14
Opened volume sum as #19, grid size 51,24,207, pixel 1.07,1.07,1.07, shown at
step 1, values float32
> select subtract #18
Nothing selected
> select add #19
2 models selected
> view matrix models
> #19,0.97905,0.089831,0.18274,57.284,-0.10037,0.99373,0.049261,-31.99,-0.17717,-0.066571,0.98193,96.324
> view matrix models
> #19,0.97905,0.089831,0.18274,94.815,-0.10037,0.99373,0.049261,95.985,-0.17717,-0.066571,0.98193,164.86
> view matrix models
> #19,0.97905,0.089831,0.18274,60.711,-0.10037,0.99373,0.049261,130.07,-0.17717,-0.066571,0.98193,191.26
> view matrix models
> #19,0.97905,0.089831,0.18274,13.503,-0.10037,0.99373,0.049261,82.88,-0.17717,-0.066571,0.98193,192.08
> view matrix models
> #19,0.97905,0.089831,0.18274,-3.0969,-0.10037,0.99373,0.049261,118.85,-0.17717,-0.066571,0.98193,196.24
> view matrix models
> #19,0.97905,0.089831,0.18274,-12.769,-0.10037,0.99373,0.049261,100.62,-0.17717,-0.066571,0.98193,196.95
> view matrix models
> #19,0.97905,0.089831,0.18274,-12.436,-0.10037,0.99373,0.049261,98.933,-0.17717,-0.066571,0.98193,183.86
> ui mousemode right "rotate selected models"
> view matrix models
> #19,0.68909,-0.71873,0.092685,175.78,0.69262,0.69081,0.2075,-55.632,-0.21316,-0.078788,0.97383,194.59
> fitmap #19 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.7563, correlation about mean = 0.4863, overlap = 108.3
steps = 112, shift = 5.14, angle = 1.94 degrees
Position of volume sum (#19) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.72075192 -0.68704262 0.09213637 162.38993600
0.66926570 0.72431939 0.16566488 -52.41306627
-0.18055499 -0.05773957 0.98186865 181.67936737
Axis -0.15941842 0.19458890 0.96784344
Axis point 196.72772693 188.82796061 0.00000000
Rotation angle (degrees) 44.48205189
Shift along axis 139.75023638
> view matrix models
> #19,0.59619,-0.80252,0.022565,210.54,0.77499,0.58262,0.24484,-59.679,-0.20964,-0.12849,0.9693,197.67
> ui mousemode right "translate selected models"
> view matrix models
> #19,0.59619,-0.80252,0.022565,215.9,0.77499,0.58262,0.24484,-53.325,-0.20964,-0.12849,0.9693,199.19
> view matrix models
> #19,0.59619,-0.80252,0.022565,219.97,0.77499,0.58262,0.24484,-62.143,-0.20964,-0.12849,0.9693,199.76
> ui mousemode right "rotate selected models"
> view matrix models
> #19,0.59553,-0.79943,0.079083,216.76,0.78971,0.60064,0.12483,-61.985,-0.14729,-0.011886,0.98902,167.37
> ui mousemode right "translate selected models"
> view matrix models
> #19,0.59553,-0.79943,0.079083,214.24,0.78971,0.60064,0.12483,-55.866,-0.14729,-0.011886,0.98902,170.09
> fitmap #19 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.5177, correlation about mean = 0.2023, overlap = 53.84
steps = 108, shift = 3.8, angle = 1.44 degrees
Position of volume sum (#19) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.60194906 -0.79383657 0.08649181 209.53905404
0.78596476 0.60813056 0.11151956 -57.38459665
-0.14112662 0.00085042 0.98999119 168.74352675
Axis -0.06917051 0.14226624 0.98740861
Axis point 189.54267173 181.45960613 0.00000000
Rotation angle (degrees) 53.12756647
Shift along axis 143.96099718
> fitmap #19 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.5174, correlation about mean = 0.2017, overlap = 53.88
steps = 48, shift = 0.0207, angle = 0.413 degrees
Position of volume sum (#19) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.59636430 -0.79818695 0.08513058 211.57729191
0.79026818 0.60240970 0.11215509 -57.61845519
-0.14080422 0.00039070 0.99003738 168.71824130
Axis -0.06949093 0.14047783 0.98764214
Axis point 189.84001515 181.59456607 0.00000000
Rotation angle (degrees) 53.52972302
Shift along axis 143.83642663
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> view matrix models
> #19,0.57741,-0.81216,0.083647,216.61,0.79959,0.58322,0.14322,-56.576,-0.1651,-0.015812,0.98615,175.31
> view matrix models
> #19,0.35306,-0.93303,0.069345,287.98,0.91156,0.35973,0.19911,-54.58,-0.21072,-0.0070835,0.97752,185.41
> ui mousemode right "translate selected models"
> view matrix models
> #19,0.35306,-0.93303,0.069345,287.42,0.91156,0.35973,0.19911,-53.794,-0.21072,-0.0070835,0.97752,186.2
> fitmap #19 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6679, correlation about mean = 0.3868, overlap = 92.82
steps = 128, shift = 1.88, angle = 3.44 degrees
Position of volume sum (#19) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.38024556 -0.92488042 0.00308610 285.47622685
0.91070005 0.37499359 0.17322017 -55.52888975
-0.16136521 -0.06305569 0.98487829 184.13872375
Axis -0.12716562 0.08850906 0.98792462
Axis point 205.33028401 190.41788284 0.00000000
Rotation angle (degrees) 68.28076115
Shift along axis 140.69760586
> fitmap #19 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6688, correlation about mean = 0.3879, overlap = 92.96
steps = 56, shift = 0.0135, angle = 0.313 degrees
Position of volume sum (#19) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.37530082 -0.92690101 0.00195100 287.00994481
0.91276772 0.36994283 0.17319753 -55.29286255
-0.16125873 -0.06322036 0.98488518 184.14252173
Axis -0.12697229 0.08765459 0.98802566
Axis point 205.51330839 190.40266057 0.00000000
Rotation angle (degrees) 68.58845304
Shift along axis 140.64855489
> select subtract #19
Nothing selected
> vop add #15-19
Opened volume sum as #20, grid size 118,161,267, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> select add #20
2 models selected
> vop add #15-19
Opened volume sum as #21, grid size 118,161,267, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> close #14
> ui mousemode right "rotate selected models"
> view matrix models
> #20,0.86864,0.46575,0.16892,-93.705,-0.46605,0.88384,-0.040353,111.45,-0.16809,-0.043673,0.9848,173.6
> view matrix models
> #20,0.88171,0.43881,0.17328,-91.882,-0.446,0.89503,0.0028778,101.51,-0.15382,-0.07982,0.98487,177.23
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,548.71,0.7188,-0.6876,0.10262,119.05,-0.16947,-0.030153,0.98507,171.24
> ui mousemode right "translate selected models"
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,474.53,0.7188,-0.6876,0.10262,168.49,-0.16947,-0.030153,0.98507,170.64
> select add #21
4 models selected
> select subtract #21
2 models selected
> color #21 #e93323ff models
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,479.3,0.7188,-0.6876,0.10262,163.75,-0.16947,-0.030153,0.98507,181.82
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,478.68,0.7188,-0.6876,0.10262,190.53,-0.16947,-0.030153,0.98507,178.85
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,498.32,0.7188,-0.6876,0.10262,179.02,-0.16947,-0.030153,0.98507,206.18
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,500.61,0.7188,-0.6876,0.10262,166.72,-0.16947,-0.030153,0.98507,203.92
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,495.09,0.7188,-0.6876,0.10262,168.3,-0.16947,-0.030153,0.98507,203.07
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,493.65,0.7188,-0.6876,0.10262,162.05,-0.16947,-0.030153,0.98507,203.41
> view matrix models
> #20,-0.67424,-0.72546,-0.13821,491.13,0.7188,-0.6876,0.10262,163.17,-0.16947,-0.030153,0.98507,203.15
> ui mousemode right "rotate selected models"
> view matrix models
> #20,-0.56715,-0.81426,-0.12381,481.12,0.80634,-0.57957,0.11797,118.79,-0.16781,-0.032924,0.98527,203.27
> ui mousemode right "translate selected models"
> view matrix models
> #20,-0.56715,-0.81426,-0.12381,471.29,0.80634,-0.57957,0.11797,130.18,-0.16781,-0.032924,0.98527,202.97
> view matrix models
> #20,-0.56715,-0.81426,-0.12381,477.27,0.80634,-0.57957,0.11797,126.54,-0.16781,-0.032924,0.98527,203.18
> fitmap #20 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 3652 points
correlation = 0.5209, correlation about mean = 0.1025, overlap = 311.2
steps = 68, shift = 1.19, angle = 0.543 degrees
Position of volume sum (#20) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.53751255 -0.83238207 -0.13498276 476.26178215
0.82720586 -0.55156506 0.10726807 115.93902707
-0.16373979 -0.05400060 0.98502447 206.46019489
Axis -0.09670397 0.01724401 0.99516380
Axis point 217.61797013 188.95155133 0.00000000
Rotation angle (degrees) 123.50615538
Shift along axis 161.40456216
> fitmap #20 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 3652 points
correlation = 0.521, correlation about mean = 0.1031, overlap = 311.2
steps = 60, shift = 0.0181, angle = 0.0114 degrees
Position of volume sum (#20) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.53740677 -0.83243401 -0.13508361 476.24321251
0.82728290 -0.55147064 0.10715940 115.89638568
-0.16369777 -0.05416418 0.98502248 206.49600510
Axis -0.09672928 0.01715699 0.99516284
Axis point 217.61646480 188.95446382 0.00000000
Rotation angle (degrees) 123.49934614
Shift along axis 161.41892047
> ui mousemode right "rotate selected models"
> view matrix models
> #20,-0.47855,-0.87088,-0.11208,466.67,0.86331,-0.48996,0.12094,94.315,-0.16024,-0.038884,0.98631,201.86
> ui mousemode right "translate selected models"
> view matrix models
> #20,-0.47855,-0.87088,-0.11208,466.69,0.86331,-0.48996,0.12094,98.493,-0.16024,-0.038884,0.98631,201.5
> fitmap #20 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 3652 points
correlation = 0.5234, correlation about mean = 0.1111, overlap = 311.5
steps = 132, shift = 5.64, angle = 3.74 degrees
Position of volume sum (#20) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.51122605 -0.85009529 -0.12643546 472.23064518
0.84562509 -0.52380892 0.10267626 104.88189171
-0.15351262 -0.05442622 0.98664667 203.47580651
Axis -0.09223973 0.01589784 0.99560991
Axis point 216.82875568 187.47959563 0.00000000
Rotation angle (degrees) 121.61400961
Shift along axis 160.69149962
> view matrix models
> #20,-0.53427,-0.83728,-0.11624,466.13,0.83084,-0.54547,0.11031,116.95,-0.15577,-0.037638,0.98708,204.4
> view matrix models
> #20,-0.53427,-0.83728,-0.11624,465.37,0.83084,-0.54547,0.11031,119.72,-0.15577,-0.037638,0.98708,204.79
> view matrix models
> #20,-0.53427,-0.83728,-0.11624,467.07,0.83084,-0.54547,0.11031,118.89,-0.15577,-0.037638,0.98708,204.57
> fitmap #20 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 3652 points
correlation = 0.6047, correlation about mean = 0.265, overlap = 361.9
steps = 116, shift = 4.33, angle = 3.32 degrees
Position of volume sum (#20) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
-0.55568700 -0.82091301 -0.13158187 475.12780420
0.81346857 -0.56954036 0.11786717 129.04962568
-0.17169988 -0.04154046 0.98427310 211.03652867
Axis -0.09704433 0.02442308 0.99498036
Axis point 215.01270667 191.06010667 0.00000000
Rotation angle (degrees) 124.78350405
Shift along axis 167.02053050
> color #20 #e93323ff models
> select subtract #20
Nothing selected
> hide #!20 models
> hide #!21 models
> show #!21 models
> show #!20 models
> show #!19 models
> hide #!20 models
> show #!20 models
> hide #!21 models
> hide #!19 models
> show #13 models
> hide #13 models
> show #!15 models
> select add #15
2 models selected
> show #!21 models
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.65462,0.74352,0.13657,-86.491,-0.73833,0.66762,-0.095664,216.09,-0.1623,-0.038207,0.986,171.28
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.65462,0.74352,0.13657,-107.47,-0.73833,0.66762,-0.095664,242.68,-0.1623,-0.038207,0.986,173.21
> view matrix models
> #15,0.65462,0.74352,0.13657,-116.4,-0.73833,0.66762,-0.095664,221.74,-0.1623,-0.038207,0.986,173.18
> view matrix models
> #15,0.65462,0.74352,0.13657,-114.03,-0.73833,0.66762,-0.095664,230.85,-0.1623,-0.038207,0.986,192.09
> ui mousemode right "rotate selected models"
> view matrix models
> #15,0.655,0.74365,0.13402,-114,-0.7388,0.66748,-0.092974,230.84,-0.15859,-0.038114,0.98661,191.16
> view matrix models
> #15,0.1593,0.98559,0.056828,-25.949,-0.96866,0.16716,-0.18374,361.15,-0.19059,-0.025776,0.98133,197.33
> ui mousemode right zoom
> ui mousemode right "translate selected models"
> view matrix models
> #15,0.1593,0.98559,0.056828,-26.975,-0.96866,0.16716,-0.18374,363.39,-0.19059,-0.025776,0.98133,199.41
> view matrix models
> #15,0.1593,0.98559,0.056828,-31.325,-0.96866,0.16716,-0.18374,358.14,-0.19059,-0.025776,0.98133,200.05
> view matrix models
> #15,0.1593,0.98559,0.056828,-33.368,-0.96866,0.16716,-0.18374,360.99,-0.19059,-0.025776,0.98133,199.29
> fitmap #13 inMap #6
Fit molecule core_one_layer (#13) to map
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) using 24002 atoms
average map value = 0.4407, steps = 48
shifted from previous position = 0.447
rotated from previous position = 0.307 degrees
atoms outside contour = 14088, contour level = 0.5
Position of core_one_layer (#13) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.99717284 0.07352320 -0.01551330 -11.60335845
-0.07367435 0.99723799 -0.00940636 15.75486569
0.01477887 0.01052270 0.99983542 100.40149487
Axis 0.13146009 -0.19981932 -0.97097399
Axis point -62.21426128 -27.23754412 0.00000000
Rotation angle (degrees) 4.34712746
Shift along axis -102.16074489
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6783, correlation about mean = 0.2301, overlap = 102.4
steps = 52, shift = 3.01, angle = 1.47 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.14794382 0.98837851 0.03493632 -27.95683282
-0.97321181 0.15177776 -0.17269131 365.23039908
-0.17598693 -0.00845182 0.98435622 191.99949836
Axis 0.08296087 0.10654184 -0.99084122
Axis point 216.22734039 201.79303557 0.00000000
Rotation angle (degrees) 81.83415422
Shift along axis -153.64802106
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6717, correlation about mean = 0.214, overlap = 102.5
steps = 48, shift = 0.173, angle = 0.539 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.15709027 0.98695171 0.03534077 -29.84974816
-0.97152830 0.16086386 -0.17394134 363.68498905
-0.17735676 -0.00701007 0.98412166 192.08246675
Axis 0.08443427 0.10758296 -0.99060424
Axis point 216.72261613 202.19042867 0.00000000
Rotation angle (degrees) 81.31292116
Shift along axis -153.67174074
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6799, correlation about mean = 0.238, overlap = 106.7
steps = 64, shift = 1.49, angle = 1.07 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.16434476 0.98592610 0.03066794 -30.51449230
-0.96743979 0.16717441 -0.19003412 363.70687562
-0.19248649 0.00156173 0.98129838 194.36536612
Axis 0.09699165 0.11296757 -0.98885335
Axis point 219.89634204 202.17375508 0.00000000
Rotation angle (degrees) 81.00149040
Shift along axis -154.07141179
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6794, correlation about mean = 0.2368, overlap = 106.7
steps = 44, shift = 0.0144, angle = 0.164 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.16712241 0.98544775 0.03102946 -31.12337225
-0.96703482 0.16997029 -0.18961478 363.17951239
-0.19212954 0.00168231 0.98136813 194.25495170
Axis 0.09688465 0.11302149 -0.98885768
Axis point 219.91975467 202.30770624 0.00000000
Rotation angle (degrees) 80.83777019
Shift along axis -154.05878689
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6795, correlation about mean = 0.2365, overlap = 106.7
steps = 44, shift = 0.0182, angle = 0.263 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.17156608 0.98465907 0.03180568 -32.10619590
-0.96631541 0.17448081 -0.18918503 362.33273226
-0.19183224 0.00172341 0.98142622 194.18945049
Axis 0.09676009 0.11334871 -0.98883242
Axis point 219.99174690 202.55559721 0.00000000
Rotation angle (degrees) 80.57615373
Shift along axis -154.05747676
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6797, correlation about mean = 0.2366, overlap = 106.8
steps = 48, shift = 0.0121, angle = 0.166 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.17434055 0.98415126 0.03242952 -32.73197845
-0.96581513 0.17732341 -0.18909667 361.80934175
-0.19185024 0.00164629 0.98142283 194.19767804
Axis 0.09672229 0.11372819 -0.98879254
Axis point 220.06035587 202.74105662 0.00000000
Rotation angle (degrees) 80.41309491
Shift along axis -154.03920528
> view matrix models
> #15,0.19609,0.97932,0.049834,-38.307,-0.9632,0.20189,-0.17743,355.78,-0.18383,-0.013208,0.98287,196.14
> fitmap #15 inMap #6
Fit map volume sum in map J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone
using 574 points
correlation = 0.6797, correlation about mean = 0.2355, overlap = 106.8
steps = 84, shift = 2.06, angle = 0.464 degrees
Position of volume sum (#15) relative to
J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone (#6) coordinates:
Matrix rotation and translation
0.18216662 0.98268620 0.03381062 -34.45869709
-0.96449032 0.18527011 -0.18823763 360.29829470
-0.19124262 0.00168060 0.98154136 194.04200771
Axis 0.09643857 0.11427977 -0.98875666
Axis point 220.17262685 203.18881566 0.00000000
Rotation angle (degrees) 79.95107504
Shift along axis -154.00866832
> view matrix models
> #15,0.20388,0.97766,0.051194,-39.869,-0.96168,0.2098,-0.17654,354.43,-0.18334,-0.013239,0.98296,195.53
> view matrix models
> #15,0.20388,0.97766,0.051194,-40.413,-0.96168,0.2098,-0.17654,354.93,-0.18334,-0.013239,0.98296,195.74
> view matrix models
> #15,0.20388,0.97766,0.051194,-40.473,-0.96168,0.2098,-0.17654,355.02,-0.18334,-0.013239,0.98296,195.29
> vop add #15,20,21
Opened volume sum as #14, grid size 285,292,321, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> select subtract #15
Nothing selected
> hide #!14 models
> show #!14 models
> color #14 #e93323ff models
> ui tool show "Map Eraser"
> hide #!6 models
> hide #5 models
> select add #22
1 model selected
> ui mousemode right "translate selected models"
> view matrix models #22,1,0,0,98.4,0,1,0,58.461,0,0,1,255.05
> view matrix models #22,1,0,0,113.34,0,1,0,205.53,0,0,1,228.58
> view matrix models #22,1,0,0,125.15,0,1,0,147.98,0,0,1,282.96
> view matrix models #22,1,0,0,133.82,0,1,0,213.31,0,0,1,283.47
> view matrix models #22,1,0,0,136,0,1,0,231.85,0,0,1,343.99
> view matrix models #22,1,0,0,132.65,0,1,0,230.53,0,0,1,352.48
> view matrix models #22,1,0,0,130.81,0,1,0,223.71,0,0,1,349.79
> volume erase #14 center 130.81,223.71,349.79 radius 15.256
> view matrix models #22,1,0,0,217.63,0,1,0,161.92,0,0,1,37.269
> volume erase #14 center 217.63,161.92,37.269 radius 15.256
> view matrix models #22,1,0,0,228.89,0,1,0,136.72,0,0,1,42.686
> view matrix models #22,1,0,0,229.23,0,1,0,136.58,0,0,1,47.063
> volume erase #14 center 229.23,136.58,47.063 radius 15.256
> show #!6 models
> show #5 models
> show #!15 models
> hide #!15 models
> close #15-19
> show #!20 models
> hide #!20 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T171_glycan.mrc
Opened T171_glycan.mrc as #15, grid size 10,12,11, pixel 1.07,1.07,1.07, shown
at level 1.07, step 1, values float32
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T171_glycan.mrc
Opened T171_glycan.mrc as #16, grid size 10,12,11, pixel 1.07,1.07,1.07, shown
at level 1.07, step 1, values float32
> select add #15
2 models selected
> view matrix models #15,1,0,0,81.557,0,1,0,-176.46,0,0,1,8.4633
> select add #16
4 models selected
> view matrix models
> #15,1,0,0,168.99,0,1,0,-367.74,0,0,1,7.3803,#16,1,0,0,87.431,0,1,0,-191.28,0,0,1,-1.083
> view matrix models
> #15,1,0,0,159.65,0,1,0,-348.06,0,0,1,3.8907,#16,1,0,0,78.095,0,1,0,-171.61,0,0,1,-4.5726
> select subtract #15
2 models selected
> view matrix models #16,1,0,0,48.799,0,1,0,-109.38,0,0,1,-13.18
> select add #15
4 models selected
> select subtract #16
2 models selected
> view matrix models #15,1,0,0,48.876,0,1,0,-109.58,0,0,1,-13.344
> select add #16
4 models selected
> view matrix models
> #15,1,0,0,-121.47,0,1,0,50.783,0,0,1,-66.445,#16,1,0,0,-121.54,0,1,0,50.987,0,0,1,-66.281
> volume #15 level 0.055
> volume #16 level 0.055
> view matrix models
> #15,1,0,0,-97.517,0,1,0,79.387,0,0,1,-12.339,#16,1,0,0,-97.595,0,1,0,79.591,0,0,1,-12.175
> view matrix models
> #15,1,0,0,-89.467,0,1,0,78.554,0,0,1,-11.913,#16,1,0,0,-89.545,0,1,0,78.758,0,0,1,-11.749
> ui mousemode right "rotate selected models"
> view matrix models
> #15,-0.60526,0.22508,0.76355,112.1,-0.70641,-0.59403,-0.38485,509.64,0.36695,-0.77231,0.51854,87.789,#16,-0.60526,0.22508,0.76355,112.32,-0.70641,-0.59403,-0.38485,509.51,0.36695,-0.77231,0.51854,87.688
> view matrix models
> #15,-0.9482,0.17181,-0.26722,353.94,0.0082286,-0.82757,-0.5613,412.75,-0.31758,-0.53442,0.78329,163.83,#16,-0.9482,0.17181,-0.26722,354.01,0.0082286,-0.82757,-0.5613,412.49,-0.31758,-0.53442,0.78329,163.88
> ui mousemode right "translate selected models"
> view matrix models
> #15,-0.9482,0.17181,-0.26722,353.23,0.0082286,-0.82757,-0.5613,407.9,-0.31758,-0.53442,0.78329,163.28,#16,-0.9482,0.17181,-0.26722,353.29,0.0082286,-0.82757,-0.5613,407.64,-0.31758,-0.53442,0.78329,163.32
> fitmap #15 inMap #14
Fit map T171_glycan.mrc in map volume sum using 64 points
correlation = 0.9779, correlation about mean = 0.7705, overlap = 28.38
steps = 52, shift = 1.59, angle = 45.8 degrees
Position of T171_glycan.mrc (#15) relative to volume sum (#14) coordinates:
Matrix rotation and translation
0.26574766 0.94167126 -0.20647863 30.13926772
-0.96228605 0.27203133 0.00212529 309.29980777
0.05816998 0.19812671 0.97844881 -208.78667095
Axis 0.10143799 -0.13696545 -0.98536836
Axis point 223.76722580 160.40016525 0.00000000
Rotation angle (degrees) 75.04182299
Shift along axis 166.42565887
> fitmap #16 inMap #14
Fit map T171_glycan.mrc in map volume sum using 64 points
correlation = 0.9779, correlation about mean = 0.7707, overlap = 28.38
steps = 72, shift = 1.48, angle = 45.8 degrees
Position of T171_glycan.mrc (#16) relative to volume sum (#14) coordinates:
Matrix rotation and translation
0.26352212 0.94202443 -0.20771635 30.77106635
-0.96289380 0.26987067 0.00231542 309.69744322
0.05823773 0.19939863 0.97818637 -208.93560024
Axis 0.10193265 -0.13755309 -0.98523545
Axis point 223.82879869 160.32940012 0.00000000
Rotation angle (degrees) 75.17962342
Shift along axis 166.38749516
> view matrix models
> #15,-0.88363,0.46809,0.010071,263.65,-0.46772,-0.88349,0.026277,423.39,0.021197,0.018508,0.9996,-73.393,#16,-0.88467,0.46611,0.0099912,264.16,-0.46571,-0.88451,0.027553,422.89,0.02168,0.019722,0.99957,-73.661
> hide #!6 models
> show #!6 models
> view matrix models
> #15,-0.88363,0.46809,0.010071,257.82,-0.46772,-0.88349,0.026277,423.7,0.021197,0.018508,0.9996,-70.621,#16,-0.88467,0.46611,0.0099912,258.33,-0.46571,-0.88451,0.027553,423.2,0.02168,0.019722,0.99957,-70.889
> view matrix models
> #15,-0.88363,0.46809,0.010071,257.46,-0.46772,-0.88349,0.026277,424.43,0.021197,0.018508,0.9996,-70.766,#16,-0.88467,0.46611,0.0099912,257.97,-0.46571,-0.88451,0.027553,423.93,0.02168,0.019722,0.99957,-71.033
> view matrix models
> #15,-0.88363,0.46809,0.010071,257.66,-0.46772,-0.88349,0.026277,424.05,0.021197,0.018508,0.9996,-70.308,#16,-0.88467,0.46611,0.0099912,258.17,-0.46571,-0.88451,0.027553,423.56,0.02168,0.019722,0.99957,-70.575
> view matrix models
> #15,-0.88363,0.46809,0.010071,257.77,-0.46772,-0.88349,0.026277,424.78,0.021197,0.018508,0.9996,-69.031,#16,-0.88467,0.46611,0.0099912,258.28,-0.46571,-0.88451,0.027553,424.28,0.02168,0.019722,0.99957,-69.299
> view matrix models
> #15,-0.88363,0.46809,0.010071,257.99,-0.46772,-0.88349,0.026277,424.47,0.021197,0.018508,0.9996,-69.805,#16,-0.88467,0.46611,0.0099912,258.5,-0.46571,-0.88451,0.027553,423.97,0.02168,0.019722,0.99957,-70.073
> select subtract #15
2 models selected
> view matrix models
> #16,-0.88467,0.46611,0.0099912,385.62,-0.46571,-0.88451,0.027553,384.6,0.02168,0.019722,0.99957,115.77
> ui mousemode right "rotate selected models"
> view matrix models
> #16,-0.26905,0.12831,0.95454,150.9,-0.20208,-0.97655,0.074304,332.32,0.94169,-0.17291,0.28867,51.144
> view matrix models
> #16,0.33963,-0.065923,0.93825,46.929,-0.095756,-0.99478,-0.035234,328.54,0.93567,-0.077877,-0.34417,137.51
> view matrix models
> #16,0.93113,-0.1667,0.32435,26.526,-0.089566,-0.9667,-0.23972,355.03,0.35352,0.19416,-0.91506,316.02
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.93113,-0.1667,0.32435,-15.012,-0.089566,-0.9667,-0.23972,344.14,0.35352,0.19416,-0.91506,294.87
> view matrix models
> #16,0.93113,-0.1667,0.32435,-36.915,-0.089566,-0.9667,-0.23972,285.89,0.35352,0.19416,-0.91506,276.48
> view matrix models
> #16,0.93113,-0.1667,0.32435,-12.483,-0.089566,-0.9667,-0.23972,311.85,0.35352,0.19416,-0.91506,307.15
> view matrix models
> #16,0.93113,-0.1667,0.32435,-19.164,-0.089566,-0.9667,-0.23972,315.47,0.35352,0.19416,-0.91506,303.79
> ui mousemode right "rotate selected models"
> view matrix models
> #16,0.85155,0.29219,0.43531,-81.447,-0.46228,0.81014,0.36052,61.988,-0.24732,-0.50823,0.82494,261.21
> view matrix models
> #16,0.80311,0.19403,0.56335,-77.33,-0.45274,0.81339,0.36527,58.725,-0.38735,-0.54841,0.74109,310.25
> ui mousemode right "translate selected models"
> view matrix models
> #16,0.80311,0.19403,0.56335,-72.259,-0.45274,0.81339,0.36527,59.131,-0.38735,-0.54841,0.74109,303.64
> view matrix models
> #16,0.80311,0.19403,0.56335,-75.03,-0.45274,0.81339,0.36527,67.245,-0.38735,-0.54841,0.74109,303.79
> view matrix models
> #16,0.80311,0.19403,0.56335,-72.94,-0.45274,0.81339,0.36527,67.523,-0.38735,-0.54841,0.74109,303.32
> fitmap #16 inMap #14
Fit map T171_glycan.mrc in map volume sum using 64 points
correlation = 0.9849, correlation about mean = 0.8521, overlap = 31.33
steps = 48, shift = 0.319, angle = 38.3 degrees
Position of T171_glycan.mrc (#16) relative to volume sum (#14) coordinates:
Matrix rotation and translation
0.31362063 -0.93371772 -0.17266520 336.26677181
0.94540773 0.29008429 0.14851019 -64.70637291
-0.08857914 -0.20981488 0.97372040 11.45202100
Axis -0.18713138 -0.04391303 0.98135289
Axis point 215.07222032 192.24759657 0.00000000
Rotation angle (degrees) 73.21909920
Shift along axis -48.84613804
> view matrix models
> #16,0.98369,0.082492,0.15984,-41.251,-0.087622,0.99583,0.025305,3.8836,-0.15708,-0.038897,0.98682,195.46
> view matrix models
> #16,0.98369,0.082492,0.15984,-39.082,-0.087622,0.99583,0.025305,15.539,-0.15708,-0.038897,0.98682,197.36
> select subtract #16
Nothing selected
> vop add #14-16
Opened volume sum as #17, grid size 287,294,323, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> close #15-16
> close #14
> color #17 #e93323ff models
> show #!20 models
> hide #!20 models
> close #20
> show #!21 models
> hide #!21 models
> show #!21 models
> hide #!21 models
> close #21
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/T171_glycan_all.mrc
> models #17
> rename #17 id #34
> show #!33 models
> show #!32 models
> show #!31 models
> show #!30 models
> vop add #30-34
Opened volume sum as #14, grid size 428,415,424, pixel 1.07,1.07,1.07, shown
at step 1, values float32
> rename #14 id #35
> rename #35 Glycan_all.mrc
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/Glycan_all.mrc
> models #35
> hide #5 models
> ui mousemode right "map eraser"
> select add #14
1 model selected
Can only have one displayed volume when erasing
> hide #!35 models
> show #!35 models
Can only have one displayed volume when erasing
> ui mousemode right "translate selected models"
Can only have one displayed volume when erasing
> view matrix models #14,1,0,0,134.75,0,1,0,174.46,0,0,1,367.85
> view matrix models #14,1,0,0,144.89,0,1,0,170.97,0,0,1,362.9
> view matrix models #14,1,0,0,147.71,0,1,0,171.85,0,0,1,362.62
Can only have one displayed volume when erasing
> hide #!6 models
> volume erase #35 center 147.71,171.85,362.62 radius 13.485
> view matrix models #14,1,0,0,133.72,0,1,0,184.29,0,0,1,20.575
> volume erase #35 center 133.72,184.29,20.575 radius 13.485
> view matrix models #14,1,0,0,141.04,0,1,0,199.39,0,0,1,21.339
> view matrix models #14,1,0,0,139.95,0,1,0,196.67,0,0,1,14.819
> view matrix models #14,1,0,0,130.38,0,1,0,204.43,0,0,1,18.9
> volume erase #35 center 130.38,204.43,18.9 radius 13.485
> show #!6 models
> view matrix models #14,1,0,0,253.94,0,1,0,196.69,0,0,1,33.331
> hide #!6 models
> volume erase #35 center 253.94,196.69,33.331 radius 13.485
> show #!6 models
> show #5 models
> show #3 models
> show #!2 models
> hide #!2 models
> hide #3 models
> show #!4 models
> hide #!4 models
> show #!2 models
> hide #!2 models
> show #3 models
> show #!4 models
> hide #!4 models
> show #!4 models
> show #!55 models
> hide #3 models
> show #3 models
> hide #!4 models
> show #!56 models
> show #!57 models
> show #!58 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #3 models
> hide #!2 models
> show #!4 models
> ui tool show "Color Zone"
> color zone #4 near #55.1 distance 1.07
> color single #4
> hide #!35 models
> show #!35 models
> select add #55.1
1624 atoms, 1676 bonds, 197 residues, 1 model selected
> select add #55.4
3248 atoms, 3352 bonds, 394 residues, 2 models selected
> select add #55.2
4859 atoms, 5005 bonds, 594 residues, 3 models selected
> select add #55.3
6438 atoms, 6599 bonds, 796 residues, 4 models selected
> select add #55
8049 atoms, 8252 bonds, 996 residues, 6 models selected
> select add #56
16098 atoms, 16504 bonds, 1992 residues, 12 models selected
> select add #57
24147 atoms, 24756 bonds, 2988 residues, 18 models selected
> select add #58
32196 atoms, 33008 bonds, 3984 residues, 24 models selected
> color zone #4 near sel distance 1.16
> color zone #4 near sel distance 1.17
> color zone #4 near sel distance 1.49
> color zone #4 near sel distance 10.75
> select subtract #55
24147 atoms, 24756 bonds, 2988 residues, 18 models selected
> select subtract #56
16098 atoms, 16504 bonds, 1992 residues, 12 models selected
> select subtract #57
8049 atoms, 8252 bonds, 996 residues, 6 models selected
> select subtract #58
Nothing selected
> view orient
> view
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/1-Curvature_trend.png
> width 1625 height 1210 supersample 3 transparentBackground true
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J2108_003_volume_map_sharp.mrc
Opened cryosparc_P1_J2108_003_volume_map_sharp.mrc as #14, grid size
360,360,360, pixel 1.07, shown at level 0.161, step 2, values float32
> hide #!6 models
> hide #5 models
> hide #!4 models
> hide #!35 models
> volume #14 step 1
> rename #14 id #101
> hide #!101 models
> show #5 models
> show #!6 models
> show #!35 models
> view
> show #!50 models
> hide #!50 models
> show #!100 models
> hide #!58 models
> hide #!57 models
> hide #!56 models
> hide #!55 models
> hide #!35 models
> hide #!6 models
> hide #5 models
> view orient
> view
> view orient
> hide #!100 models
> show #5 models
> hide #5 models
> show #!6 models
> show #3 models
> hide #3 models
> show #!4 models
> view
> show #!2 models
> hide #!2 models
> show #5 models
> hide #5 models
> show #!7 models
> show #!8 models
> hide #!7 models
> hide #!4 models
> show #!101 models
> hide #!101 models
> show #!100 models
> hide #!100 models
> show #!100 models
> hide #!100 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> show #!101 models
> hide #!101 models
> show #!100 models
> show #!59 models
> hide #!8 models
> hide #!6 models
> show #!1 models
> hide #!100 models
> show #!100 models
> hide #!100 models
> show #!100 models
> select add #59
86328 atoms, 88077 bonds, 10824 residues, 34 models selected
> view matrix models
> #59,0.99613,-0.086759,0.014154,103.36,0.086713,0.99623,0.0038109,40.32,-0.014431,-0.0025689,0.99989,8.4162
> view matrix models
> #59,0.99613,-0.086759,0.014154,11.684,0.086713,0.99623,0.0038109,-21.343,-0.014431,-0.0025689,0.99989,-2.7152
> ui mousemode right "rotate selected models"
> view matrix models
> #59,0.48905,0.87201,-0.020845,-67.828,0.81959,-0.45121,0.35311,46.436,0.29851,-0.18977,-0.93535,355.18
> view matrix models
> #59,0.44483,0.89265,0.072764,-81.805,0.84998,-0.44638,0.27979,54.154,0.28223,-0.06261,-0.9573,338.17
> view matrix models
> #59,0.44456,0.89345,0.064113,-80.205,0.8623,-0.44623,0.23942,59.707,0.24252,-0.051153,-0.9688,345.82
> view matrix models
> #59,0.43333,0.89261,0.12439,-89.815,0.89343,-0.44359,0.070775,86.761,0.11835,0.080465,-0.98971,348.61
> view matrix models
> #59,0.44471,0.89553,0.016012,-70.977,0.89534,-0.44398,-0.035249,107.73,-0.024458,0.030012,-0.99925,387.42
> ui mousemode right "translate selected models"
> view matrix models
> #59,0.44471,0.89553,0.016012,-73.276,0.89534,-0.44398,-0.035249,101,-0.024458,0.030012,-0.99925,378.57
> combine #59
> rename #14 id #61
> select subtract #59
8 models selected
> select add #61
86328 atoms, 88077 bonds, 10824 residues, 1 model selected
> rename #61 FlaA1_sheath
> view matrix models
> #61,0.44471,0.89553,0.016012,-73.737,0.89534,-0.44398,-0.035249,100.19,-0.024458,0.030012,-0.99925,378.5
> view matrix models
> #61,0.44471,0.89553,0.016012,-76.113,0.89534,-0.44398,-0.035249,94.125,-0.024458,0.030012,-0.99925,372.17
> view matrix models
> #61,0.44471,0.89553,0.016012,-84.361,0.89534,-0.44398,-0.035249,104.91,-0.024458,0.030012,-0.99925,373.54
> hide #!59 models
> view matrix models
> #61,0.44471,0.89553,0.016012,-67.346,0.89534,-0.44398,-0.035249,103,-0.024458,0.030012,-0.99925,373.54
> view matrix models
> #61,0.44471,0.89553,0.016012,-68.453,0.89534,-0.44398,-0.035249,104.96,-0.024458,0.030012,-0.99925,373.44
> view matrix models
> #61,0.44471,0.89553,0.016012,-69.26,0.89534,-0.44398,-0.035249,98.544,-0.024458,0.030012,-0.99925,376.53
> view matrix models
> #61,0.44471,0.89553,0.016012,-67.547,0.89534,-0.44398,-0.035249,110.23,-0.024458,0.030012,-0.99925,375.92
> ui mousemode right "rotate selected models"
> view matrix models
> #61,0.59137,0.80636,-0.0080352,-74.068,0.80543,-0.59112,-0.043184,157.17,-0.039572,0.019066,-0.99903,380.88
> fitmap #61 inMap #100
Fit molecule FlaA1_sheath (#61) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) using 86328 atoms
average map value = 0.2764, steps = 96
shifted from previous position = 5.64
rotated from previous position = 3.59 degrees
atoms outside contour = 52125, contour level = 0.28858
Position of FlaA1_sheath (#61) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) coordinates:
Matrix rotation and translation
0.84829887 -0.52951773 0.00018779 130.97114383
0.52951779 0.84829883 -0.00024639 -72.54891380
-0.00002882 0.00030845 0.99999996 28.53912969
Axis 0.00052392 0.00020454 0.99999984
Axis point 192.10546620 192.27598389 0.00000000
Rotation angle (degrees) 31.97288250
Shift along axis 28.59290440
> fitmap #61 inMap #100
Fit molecule FlaA1_sheath (#61) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) using 86328 atoms
average map value = 0.2764, steps = 28
shifted from previous position = 0.00266
rotated from previous position = 0.00599 degrees
atoms outside contour = 52112, contour level = 0.28858
Position of FlaA1_sheath (#61) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) coordinates:
Matrix rotation and translation
0.84835145 -0.52943348 0.00017799 130.94835125
0.52943354 0.84835142 -0.00021503 -72.54688658
-0.00003714 0.00027665 0.99999997 28.54753106
Axis 0.00046435 0.00020316 0.99999987
Axis point 192.11506499 192.28307642 0.00000000
Rotation angle (degrees) 31.96719128
Shift along axis 28.59359425
> fitmap #61 inMap #100
Fit molecule FlaA1_sheath (#61) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) using 86328 atoms
average map value = 0.2764, steps = 24
shifted from previous position = 0.00329
rotated from previous position = 0.00503 degrees
atoms outside contour = 52124, contour level = 0.28858
Position of FlaA1_sheath (#61) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) coordinates:
Matrix rotation and translation
0.84830624 -0.52950592 0.00017185 130.97029476
0.52950598 0.84830620 -0.00023469 -72.55079870
-0.00002150 0.00029009 0.99999996 28.54082530
Axis 0.00049554 0.00018257 0.99999986
Axis point 192.11096864 192.28129792 0.00000000
Rotation angle (degrees) 31.97208437
Shift along axis 28.59247614
> select subtract #61
Nothing selected
> hide #!1 models
> select add #61
86328 atoms, 88077 bonds, 10824 residues, 1 model selected
> view matrix models
> #61,0.45231,0.85415,-0.25658,-9.8456,0.87592,-0.4796,-0.052451,126.65,-0.16786,-0.20102,-0.9651,436.33
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> view matrix models
> #61,0.89216,-0.44693,0.06566,90.51,-0.45105,-0.88931,0.075396,435.31,0.024695,-0.096881,-0.99499,385.24
> ui mousemode right "translate selected models"
> view matrix models
> #61,0.89216,-0.44693,0.06566,83.005,-0.45105,-0.88931,0.075396,433.53,0.024695,-0.096881,-0.99499,397.84
> fitmap #61 inMap #100
Fit molecule FlaA1_sheath (#61) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) using 86328 atoms
average map value = 0.0712, steps = 144
shifted from previous position = 9.34
rotated from previous position = 3.92 degrees
atoms outside contour = 78919, contour level = 0.28858
Position of FlaA1_sheath (#61) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) coordinates:
Matrix rotation and translation
-0.29364717 -0.95366390 0.06554801 418.83724064
0.95344455 -0.28727358 0.09174665 44.94744750
-0.06866524 0.08943753 0.99362268 8.73400473
Axis -0.00120781 0.07020158 0.99753209
Axis point 193.07178637 177.29957122 0.00000000
Rotation angle (degrees) 107.07654500
Shift along axis 11.36195702
> view matrix models
> #61,0.90867,-0.40458,0.10307,77.088,-0.41053,-0.91077,0.04423,446.32,0.075975,-0.082502,-0.99369,386.78
> ui mousemode right "rotate selected models"
> view matrix models
> #61,0.98233,0.18617,0.019148,-33.349,0.18501,-0.98144,0.050508,343.88,0.028195,-0.046073,-0.99854,389.98
> fitmap #61 inMap #100
Fit molecule FlaA1_sheath (#61) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) using 86328 atoms
average map value = 0.1157, steps = 112
shifted from previous position = 10.5
rotated from previous position = 5.78 degrees
atoms outside contour = 73597, contour level = 0.28858
Position of FlaA1_sheath (#61) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) coordinates:
Matrix rotation and translation
0.38229190 -0.92404156 -0.00031833 296.44335800
0.92404163 0.38229181 0.00034506 -58.94262749
-0.00019714 -0.00042606 0.99999990 8.99230228
Axis -0.00041726 -0.00006557 0.99999991
Axis point 192.30983225 192.25944718 0.00000000
Rotation angle (degrees) 67.52428597
Shift along axis 8.87247294
> select subtract #61
Nothing selected
> fitmap #61 inMap #100
Fit molecule FlaA1_sheath (#61) to map
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) using 86328 atoms
average map value = 0.1157, steps = 24
shifted from previous position = 0.0039
rotated from previous position = 0.0023 degrees
atoms outside contour = 73597, contour level = 0.28858
Position of FlaA1_sheath (#61) relative to
WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc (#100) coordinates:
Matrix rotation and translation
0.38226038 -0.92405460 -0.00032513 296.45098314
0.92405467 0.38226028 0.00036519 -58.94499442
-0.00021316 -0.00044003 0.99999989 8.99563175
Axis -0.00043570 -0.00006059 0.99999990
Axis point 192.31390443 192.25588048 0.00000000
Rotation angle (degrees) 67.52624093
Shift along axis 8.87003801
> volume zone #100 nearAtoms #61 range 5 invert false newMap true
> minimalBounds true bondPointSpacing 2
Opened WT_Td_3.12A_sheath_fromJ766_EMhanced.mrc zone as #14, grid size
202,204,232, pixel 1.07, shown at step 1, values float32
> surface dust #14 size 10.7
> rename #14 FlaA1_sheath_sym
> show #5 models
> hide #5 models
> show #!6 models
> color #14 #a9fab5ff models
> hide #61 models
> view
> show #3 models
> hide #3 models
> hide #!6 models
> hide #!14 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Homo/DFlaB3/cryosparc_P1_J1838_006_volume_map_sharp.mrc
Opened cryosparc_P1_J1838_006_volume_map_sharp.mrc as #15, grid size
360,360,360, pixel 1.07, shown at level 0.109, step 2, values float32
> volume #15 step 1
> surface dust #15 size 10.7
> view orient
> view
> view orient
> view
> hide #!15 models
> rename #15 id #102
> show #!1 models
> color single #4
> color single #1
> show #!4 models
> hide #!4 models
> hide #!1 models
> show #!2 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J2103_003_volume_map_sharp.mrc
Opened cryosparc_P1_J2103_003_volume_map_sharp.mrc as #15, grid size
360,360,360, pixel 1.07, shown at level 0.152, step 2, values float32
> hide #!2 models
> surface dust #15 size 10.7
> volume #15 step 1
> volume #15 level 0.125
> volume #15 level 0.13
> view
> color #15 #9bccffff models
> color #15 #fff6b6ff models
> hide #!15 models
> show #!102 models
> color #102 #fff6b6ff models
> rename #15 id #103
> show #!103 models
> hide #!102 models
> hide #!103 models
> show #!102 models
> hide #!102 models
> show #!4 models
> show #3 models
> hide #3 models
> select add #55.1
1624 atoms, 1676 bonds, 197 residues, 1 model selected
> select subtract #55.1
Nothing selected
> select add #55.3
1579 atoms, 1594 bonds, 202 residues, 1 model selected
> select subtract #55.3
Nothing selected
> show #!55 models
> hide #55.1 models
> hide #55.2 models
> hide #55.4 models
> hide #55.5 models
> select add #55.3
1579 atoms, 1594 bonds, 202 residues, 1 model selected
> volume zone #1 nearAtoms #55.3 range 5 invert false newMap true
> minimalBounds true bondPointSpacing 2
Opened J1272_Td_DFlaB3_3.51A_sheath_emhanced_map.mrc zone as #15, grid size
58,42,70, pixel 1.07, shown at step 1, values float32
> select subtract #55.3
Nothing selected
> hide #!55 models
> show #55.1 models
> show #55.2 models
> show #55.4 models
> show #55.5 models
> hide #!55 models
> hide #!15 models
> show #!15 models
> volume #15 level 0.08057
> hide #!4 models
> volume #15 level 0.004969
> surface dust #15 size 10.7
> show #!52 models
> hide #!52 models
> show #!55 models
> volume #15 level 0.6627
> close #15
> show #!2 models
> hide #!2 models
> show #3 models
> hide #3 models
> show #!4 models
> volume zone #4 nearAtoms #55.3 range 5 invert false newMap true
> minimalBounds true bondPointSpacing 2
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone zone as #15, grid size
56,39,70, pixel 1.07, shown at step 1, values float32
> surface dust #15 size 10.7
> hide #!55 models
> surface dust #15 size 10.7
> volume #15 level 0.08079
> select add #55.3
1579 atoms, 1594 bonds, 202 residues, 1 model selected
> select subtract #55.3
Nothing selected
> show #!55 models
> hide #55.1 models
> hide #55.2 models
> hide #55.4 models
> hide #55.5 models
> color #15 #cacacc80 models
> color #15 #a2a2a34d models
> color #15 #f5f1ef41 models
> volume #15 level 0.08137
> surface dust #15 size 10.7
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/3-HEAT.png
> width 1625 height 1210 supersample 3 transparentBackground true
> hide #55.3 models
> show #55.2 models
> hide #!15 models
> show #!4 models
> volume zone #4 nearAtoms #55.2 range 5 invert false newMap true
> minimalBounds true bondPointSpacing 2
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone zone as #16, grid size
54,51,69, pixel 1.07, shown at step 1, values float32
> surface dust #16 size 10.7
> color #16 #f5f1ef41 models
> volume #16 level 0.1069
> hide #!55 models
> ui tool show "Map Eraser"
> show #!55 models
> select add #17
1 model selected
> ui mousemode right "translate selected models"
> view matrix models #17,1,0,0,130.12,0,1,0,144.71,0,0,1,228.04
> view matrix models #17,1,0,0,120.88,0,1,0,152.63,0,0,1,236.01
> view matrix models #17,1,0,0,117.99,0,1,0,141.58,0,0,1,237.07
> view matrix models #17,1,0,0,113.48,0,1,0,143.09,0,0,1,237.76
> view matrix models #17,1,0,0,113.85,0,1,0,143.98,0,0,1,237.47
> view matrix models #17,1,0,0,114.24,0,1,0,144.9,0,0,1,237.37
> volume erase #16 center 114.24,144.9,237.37 radius 4.0899
> view matrix models #17,1,0,0,124.47,0,1,0,143.35,0,0,1,238.47
> volume erase #16 center 124.47,143.35,238.47 radius 4.0899
> view matrix models #17,1,0,0,131.8,0,1,0,146.41,0,0,1,238.63
> volume erase #16 center 131.8,146.41,238.63 radius 4.0899
> view matrix models #17,1,0,0,133.5,0,1,0,148.35,0,0,1,236.79
> volume erase #16 center 133.5,148.35,236.79 radius 4.0899
> view matrix models #17,1,0,0,133.23,0,1,0,151.86,0,0,1,241.42
> volume erase #16 center 133.23,151.86,241.42 radius 4.0899
> view matrix models #17,1,0,0,131.01,0,1,0,160.16,0,0,1,242.23
> volume erase #16 center 131.01,160.16,242.23 radius 4.0899
> view matrix models #17,1,0,0,127.05,0,1,0,158.28,0,0,1,240.93
> view matrix models #17,1,0,0,126.56,0,1,0,161.59,0,0,1,241.13
> volume erase #16 center 126.56,161.59,241.13 radius 4.0899
> view matrix models #17,1,0,0,126.88,0,1,0,159.84,0,0,1,242.02
> view matrix models #17,1,0,0,127.3,0,1,0,157.81,0,0,1,242.76
> volume erase #16 center 127.3,157.81,242.76 radius 4.0899
> view matrix models #17,1,0,0,128.41,0,1,0,152.43,0,0,1,241.34
> volume erase #16 center 128.41,152.43,241.34 radius 4.0899
> view matrix models #17,1,0,0,127.08,0,1,0,154.46,0,0,1,244.44
> volume erase #16 center 127.08,154.46,244.44 radius 4.0899
> view matrix models #17,1,0,0,126.76,0,1,0,153.71,0,0,1,244.3
> view matrix models #17,1,0,0,125.35,0,1,0,153.33,0,0,1,245.44
> volume erase #16 center 125.35,153.33,245.44 radius 4.0899
> view matrix models #17,1,0,0,118.77,0,1,0,157.42,0,0,1,239
> view matrix models #17,1,0,0,116.71,0,1,0,158.19,0,0,1,250.17
> view matrix models #17,1,0,0,108.49,0,1,0,153.85,0,0,1,248.25
> volume erase #16 center 108.49,153.85,248.25 radius 4.0899
> view matrix models #17,1,0,0,106.61,0,1,0,159.16,0,0,1,255.58
> view matrix models #17,1,0,0,110.02,0,1,0,161.84,0,0,1,256.73
> volume erase #16 center 110.02,161.84,256.73 radius 4.0899
> view matrix models #17,1,0,0,112.11,0,1,0,164.58,0,0,1,254.72
> volume erase #16 center 112.11,164.58,254.72 radius 4.0899
> view matrix models #17,1,0,0,127.86,0,1,0,185.65,0,0,1,249.08
> view matrix models #17,1,0,0,120.42,0,1,0,165.99,0,0,1,240.3
> view matrix models #17,1,0,0,130.19,0,1,0,155.58,0,0,1,246.59
> view matrix models #17,1,0,0,130.75,0,1,0,157.3,0,0,1,246.13
> volume erase #16 center 130.75,157.3,246.13 radius 4.0899
> view matrix models #17,1,0,0,130.41,0,1,0,167.17,0,0,1,246.59
> view matrix models #17,1,0,0,130.37,0,1,0,166.7,0,0,1,247.14
> volume erase #16 center 130.37,166.7,247.14 radius 4.0899
> view matrix models #17,1,0,0,129.08,0,1,0,165.82,0,0,1,250.15
> view matrix models #17,1,0,0,131.12,0,1,0,163.52,0,0,1,249.57
> volume erase #16 center 131.12,163.52,249.57 radius 4.0899
> view matrix models #17,1,0,0,129.58,0,1,0,162.79,0,0,1,247.19
> view matrix models #17,1,0,0,130.09,0,1,0,163.13,0,0,1,247.04
> volume erase #16 center 130.09,163.13,247.04 radius 4.0899
> view matrix models #17,1,0,0,128.69,0,1,0,153.81,0,0,1,230.16
> view matrix models #17,1,0,0,131.12,0,1,0,141.91,0,0,1,239.63
> volume erase #16 center 131.12,141.91,239.63 radius 4.0899
> view matrix models #17,1,0,0,139.98,0,1,0,146.3,0,0,1,287.87
> view matrix models #17,1,0,0,134.68,0,1,0,136.57,0,0,1,293.04
> view matrix models #17,1,0,0,134.23,0,1,0,136.11,0,0,1,292.08
> volume erase #16 center 134.23,136.11,292.08 radius 4.0899
> view matrix models #17,1,0,0,133.48,0,1,0,136.72,0,0,1,286.02
> volume erase #16 center 133.48,136.72,286.02 radius 4.0899
> view matrix models #17,1,0,0,135.92,0,1,0,139.38,0,0,1,287.02
> view matrix models #17,1,0,0,136.08,0,1,0,138.81,0,0,1,287.4
> volume erase #16 center 136.08,138.81,287.4 radius 4.0899
> view matrix models #17,1,0,0,176.79,0,1,0,127.84,0,0,1,292.79
> view matrix models #17,1,0,0,173.39,0,1,0,128.1,0,0,1,285.49
> view matrix models #17,1,0,0,128.89,0,1,0,134.87,0,0,1,288.89
> view matrix models #17,1,0,0,130.8,0,1,0,142.18,0,0,1,298.3
> view matrix models #17,1,0,0,129.41,0,1,0,143.03,0,0,1,296.03
> view matrix models #17,1,0,0,128.88,0,1,0,142.51,0,0,1,295.03
> volume erase #16 center 128.88,142.51,295.03 radius 4.0899
> view matrix models #17,1,0,0,128.02,0,1,0,142,0,0,1,294.33
> volume erase #16 center 128.02,142,294.33 radius 4.0899
> view matrix models #17,1,0,0,128.42,0,1,0,142.45,0,0,1,293.97
> view matrix models #17,1,0,0,129.97,0,1,0,142.03,0,0,1,293.59
> volume erase #16 center 129.97,142.03,293.59 radius 4.0899
> view matrix models #17,1,0,0,126.42,0,1,0,142.83,0,0,1,293.54
> volume erase #16 center 126.42,142.83,293.54 radius 4.0899
> view matrix models #17,1,0,0,122.02,0,1,0,147.12,0,0,1,312.24
> view matrix models #17,1,0,0,124.79,0,1,0,150.14,0,0,1,297.29
> view matrix models #17,1,0,0,125.61,0,1,0,149.74,0,0,1,298.34
> view matrix models #17,1,0,0,125.74,0,1,0,149.15,0,0,1,298.88
> volume erase #16 center 125.74,149.15,298.88 radius 4.0899
> view matrix models #17,1,0,0,125.71,0,1,0,149.18,0,0,1,298.45
> view matrix models #17,1,0,0,127.94,0,1,0,148.62,0,0,1,298.52
> volume erase #16 center 127.94,148.62,298.52 radius 4.0899
> view matrix models #17,1,0,0,122.46,0,1,0,142.41,0,0,1,313.68
> hide #55.2 models
> show #55.1 models
> hide #55.1 models
> show #55.2 models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/3-FlaA3.png
> width 1625 height 1210 supersample 3 transparentBackground true
> hide #55.2 models
> show #55.1 models
> hide #!16 models
> volume zone #4 nearAtoms #55.1 range 5 invert false newMap true
> minimalBounds true bondPointSpacing 2
Opened cryosparc_P1_J2054_003_volume_map_sharp.mrc zone zone as #17, grid size
51,53,72, pixel 1.07, shown at step 1, values float32
> color #17 #f5f1ef41 models
> surface dust #17 size 10.7
> ui tool show "Map Eraser"
> ui mousemode right "translate selected models"
> select add #18
1 model selected
> view matrix models #18,1,0,0,150.31,0,1,0,140.09,0,0,1,243.01
> view matrix models #18,1,0,0,156.55,0,1,0,124.43,0,0,1,249.89
> view matrix models #18,1,0,0,154.15,0,1,0,127.73,0,0,1,254.99
> view matrix models #18,1,0,0,152.47,0,1,0,120.87,0,0,1,250.97
> view matrix models #18,1,0,0,149.83,0,1,0,114.91,0,0,1,255.84
> view matrix models #18,1,0,0,150.74,0,1,0,114.75,0,0,1,256.88
> volume erase #17 center 150.74,114.75,256.88 radius 4.9474
> view matrix models #18,1,0,0,148.83,0,1,0,114.86,0,0,1,253.82
> view matrix models #18,1,0,0,142.3,0,1,0,119.07,0,0,1,254.42
> view matrix models #18,1,0,0,142.46,0,1,0,120.58,0,0,1,253.2
> volume erase #17 center 142.46,120.58,253.2 radius 4.9474
> view matrix models #18,1,0,0,144.7,0,1,0,119.64,0,0,1,253.95
> view matrix models #18,1,0,0,146.5,0,1,0,120.09,0,0,1,253.85
> volume erase #17 center 146.5,120.09,253.85 radius 4.9474
> view matrix models #18,1,0,0,148.18,0,1,0,127.33,0,0,1,253.36
> view matrix models #18,1,0,0,148.71,0,1,0,125.41,0,0,1,252.13
> volume erase #17 center 148.71,125.41,252.13 radius 4.9474
> view matrix models #18,1,0,0,147.42,0,1,0,129.92,0,0,1,251.43
> volume erase #17 center 147.42,129.92,251.43 radius 4.9474
> view matrix models #18,1,0,0,142.88,0,1,0,134.57,0,0,1,251.23
> view matrix models #18,1,0,0,143.74,0,1,0,130.85,0,0,1,250.25
> volume erase #17 center 143.74,130.85,250.25 radius 4.9474
> view matrix models #18,1,0,0,142.61,0,1,0,137.27,0,0,1,250.14
> volume erase #17 center 142.61,137.27,250.14 radius 4.9474
> view matrix models #18,1,0,0,122.69,0,1,0,130.7,0,0,1,297.98
> view matrix models #18,1,0,0,119.87,0,1,0,147.09,0,0,1,293.78
> volume erase #17 center 119.87,147.09,293.78 radius 4.9474
> view matrix models #18,1,0,0,125.52,0,1,0,150.68,0,0,1,284.39
> view matrix models #18,1,0,0,135.23,0,1,0,149.56,0,0,1,289.78
> volume erase #17 center 135.23,149.56,289.78 radius 4.9474
> view matrix models #18,1,0,0,134.04,0,1,0,149.47,0,0,1,286.87
> view matrix models #18,1,0,0,131.88,0,1,0,151.32,0,0,1,287.91
> view matrix models #18,1,0,0,129.53,0,1,0,144.59,0,0,1,290.41
> volume erase #17 center 129.53,144.59,290.41 radius 4.9474
> view matrix models #18,1,0,0,137.04,0,1,0,158.76,0,0,1,272.59
> view matrix models #18,1,0,0,117.98,0,1,0,148.92,0,0,1,268.21
> view matrix models #18,1,0,0,119.16,0,1,0,145.27,0,0,1,261.67
> view matrix models #18,1,0,0,121.58,0,1,0,146.43,0,0,1,261.68
> volume erase #17 center 121.58,146.43,261.68 radius 4.9474
> view matrix models #18,1,0,0,134.44,0,1,0,139.49,0,0,1,305.82
> volume erase #17 center 134.44,139.49,305.82 radius 4.9474
> undo
> view matrix models #18,1,0,0,144.03,0,1,0,100.01,0,0,1,297.81
> view matrix models #18,1,0,0,143.99,0,1,0,98.129,0,0,1,282
> view matrix models #18,1,0,0,158.16,0,1,0,110.55,0,0,1,292.86
> view matrix models #18,1,0,0,153.74,0,1,0,116.86,0,0,1,278.6
> view matrix models #18,1,0,0,157.49,0,1,0,119.84,0,0,1,281.15
> volume erase #17 center 157.49,119.84,281.15 radius 4.9474
> view matrix models #18,1,0,0,135.29,0,1,0,155.69,0,0,1,268.36
> view matrix models #18,1,0,0,138.21,0,1,0,148.31,0,0,1,262.3
> view matrix models #18,1,0,0,138.53,0,1,0,146.39,0,0,1,275.09
> view matrix models #18,1,0,0,136.23,0,1,0,140.09,0,0,1,273.41
> view matrix models #18,1,0,0,131.32,0,1,0,142.37,0,0,1,275.16
> view matrix models #18,1,0,0,131.57,0,1,0,141.71,0,0,1,275.06
> volume erase #17 center 131.57,141.71,275.06 radius 4.9474
> view matrix models #18,1,0,0,130.23,0,1,0,150.78,0,0,1,289.46
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/3-FlaA2.png
> width 1625 height 1210 supersample 3 transparentBackground true
> hide #!17 models
> show #55.2 models
> show #55.3 models
> show #55.4 models
> show #55.5 models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/3-Asy_conformation.png
> width 1625 height 1210 supersample 3 transparentBackground true
> show #13 models
> hide #13 models
> show #!60 models
> ui mousemode right select
> select #60.1/F:115
6 atoms, 5 bonds, 1 residue, 1 model selected
> select add #60
216018 atoms, 217305 bonds, 28314 residues, 4 models selected
> select subtract #60
Nothing selected
> hide #!60 models
> show #5 models
> hide #5 models
> split #60
Split FlaB1_core_monox33_real_refine.pdb (#60.1) into 33 models
Split FlaB1_core_monox33_real_refine.pdb (#60.2) into 33 models
Split FlaB1_core_monox33_real_refine.pdb (#60.3) into 33 models
Chain information for FlaB1_core_monox33_real_refine.pdb B #60.1.1
---
Chain | Description
B | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb C #60.1.2
---
Chain | Description
C | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb D #60.1.3
---
Chain | Description
D | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb E #60.1.4
---
Chain | Description
E | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb F #60.1.5
---
Chain | Description
F | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb G #60.1.6
---
Chain | Description
G | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb H #60.1.7
---
Chain | Description
H | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb I #60.1.8
---
Chain | Description
I | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb J #60.1.9
---
Chain | Description
J | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb K #60.1.10
---
Chain | Description
K | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb L #60.1.11
---
Chain | Description
L | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb M #60.1.12
---
Chain | Description
M | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb N #60.1.13
---
Chain | Description
N | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb O #60.1.14
---
Chain | Description
O | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb P #60.1.15
---
Chain | Description
P | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Q #60.1.16
---
Chain | Description
Q | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb R #60.1.17
---
Chain | Description
R | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb S #60.1.18
---
Chain | Description
S | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb T #60.1.19
---
Chain | Description
T | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb U #60.1.20
---
Chain | Description
U | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb V #60.1.21
---
Chain | Description
V | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb W #60.1.22
---
Chain | Description
W | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb X #60.1.23
---
Chain | Description
X | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Y #60.1.24
---
Chain | Description
Y | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Z #60.1.25
---
Chain | Description
Z | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb a #60.1.26
---
Chain | Description
a | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb b #60.1.27
---
Chain | Description
b | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb c #60.1.28
---
Chain | Description
c | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb d #60.1.29
---
Chain | Description
d | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb e #60.1.30
---
Chain | Description
e | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb f #60.1.31
---
Chain | Description
f | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb g #60.1.32
---
Chain | Description
g | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb h #60.1.33
---
Chain | Description
h | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb B #60.2.1
---
Chain | Description
B | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb C #60.2.2
---
Chain | Description
C | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb D #60.2.3
---
Chain | Description
D | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb E #60.2.4
---
Chain | Description
E | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb F #60.2.5
---
Chain | Description
F | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb G #60.2.6
---
Chain | Description
G | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb H #60.2.7
---
Chain | Description
H | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb I #60.2.8
---
Chain | Description
I | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb J #60.2.9
---
Chain | Description
J | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb K #60.2.10
---
Chain | Description
K | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb L #60.2.11
---
Chain | Description
L | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb M #60.2.12
---
Chain | Description
M | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb N #60.2.13
---
Chain | Description
N | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb O #60.2.14
---
Chain | Description
O | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb P #60.2.15
---
Chain | Description
P | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Q #60.2.16
---
Chain | Description
Q | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb R #60.2.17
---
Chain | Description
R | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb S #60.2.18
---
Chain | Description
S | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb T #60.2.19
---
Chain | Description
T | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb U #60.2.20
---
Chain | Description
U | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb V #60.2.21
---
Chain | Description
V | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb W #60.2.22
---
Chain | Description
W | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb X #60.2.23
---
Chain | Description
X | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Y #60.2.24
---
Chain | Description
Y | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Z #60.2.25
---
Chain | Description
Z | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb a #60.2.26
---
Chain | Description
a | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb b #60.2.27
---
Chain | Description
b | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb c #60.2.28
---
Chain | Description
c | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb d #60.2.29
---
Chain | Description
d | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb e #60.2.30
---
Chain | Description
e | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb f #60.2.31
---
Chain | Description
f | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb g #60.2.32
---
Chain | Description
g | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb h #60.2.33
---
Chain | Description
h | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb B #60.3.1
---
Chain | Description
B | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb C #60.3.2
---
Chain | Description
C | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb D #60.3.3
---
Chain | Description
D | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb E #60.3.4
---
Chain | Description
E | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb F #60.3.5
---
Chain | Description
F | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb G #60.3.6
---
Chain | Description
G | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb H #60.3.7
---
Chain | Description
H | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb I #60.3.8
---
Chain | Description
I | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb J #60.3.9
---
Chain | Description
J | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb K #60.3.10
---
Chain | Description
K | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb L #60.3.11
---
Chain | Description
L | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb M #60.3.12
---
Chain | Description
M | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb N #60.3.13
---
Chain | Description
N | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb O #60.3.14
---
Chain | Description
O | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb P #60.3.15
---
Chain | Description
P | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Q #60.3.16
---
Chain | Description
Q | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb R #60.3.17
---
Chain | Description
R | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb S #60.3.18
---
Chain | Description
S | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb T #60.3.19
---
Chain | Description
T | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb U #60.3.20
---
Chain | Description
U | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb V #60.3.21
---
Chain | Description
V | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb W #60.3.22
---
Chain | Description
W | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb X #60.3.23
---
Chain | Description
X | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Y #60.3.24
---
Chain | Description
Y | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb Z #60.3.25
---
Chain | Description
Z | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb a #60.3.26
---
Chain | Description
a | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb b #60.3.27
---
Chain | Description
b | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb c #60.3.28
---
Chain | Description
c | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb d #60.3.29
---
Chain | Description
d | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb e #60.3.30
---
Chain | Description
e | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb f #60.3.31
---
Chain | Description
f | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb g #60.3.32
---
Chain | Description
g | No description available
Chain information for FlaB1_core_monox33_real_refine.pdb h #60.3.33
---
Chain | Description
h | No description available
> show #!60 models
> select #60.1.5/F:209
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #60.1.8/I:112
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #60.1.10/K:123
27 atoms, 24 bonds, 3 residues, 3 models selected
> select add #60.1.11/L:115
33 atoms, 29 bonds, 4 residues, 4 models selected
> select add #60.2.12/M:176
38 atoms, 33 bonds, 5 residues, 5 models selected
> select add #60.1.13/N:105
47 atoms, 41 bonds, 6 residues, 6 models selected
> select subtract #60.2.12/M:176
42 atoms, 37 bonds, 5 residues, 5 models selected
> select add #60.2.15/P:76
47 atoms, 41 bonds, 6 residues, 6 models selected
> select add #60.1.5
2220 atoms, 2228 bonds, 291 residues, 6 models selected
> select add #60.1.8
4395 atoms, 4417 bonds, 576 residues, 6 models selected
> select add #60.1.10
6566 atoms, 6602 bonds, 861 residues, 6 models selected
> select add #60.1.11
8742 atoms, 8792 bonds, 1146 residues, 6 models selected
> select add #60.2.33/h:213
8751 atoms, 8800 bonds, 1147 residues, 7 models selected
> select add #60.2
80743 atoms, 81223 bonds, 10583 residues, 39 models selected
> select subtract #60.2
8737 atoms, 8788 bonds, 1145 residues, 5 models selected
> select add #60.2.33/h:122
8745 atoms, 8795 bonds, 1146 residues, 6 models selected
> select add #60.2.12/M:166
8756 atoms, 8805 bonds, 1147 residues, 7 models selected
> select add #60.2.15/P:119
8761 atoms, 8809 bonds, 1148 residues, 8 models selected
> select add #60.1.13/N:195
8766 atoms, 8813 bonds, 1149 residues, 8 models selected
> select add #60.1.13
10934 atoms, 10996 bonds, 1433 residues, 8 models selected
> select add #60.2.12
13105 atoms, 13181 bonds, 1718 residues, 8 models selected
> select add #60.2.15
15282 atoms, 15372 bonds, 2003 residues, 8 models selected
> select add #60.2.33
17456 atoms, 17560 bonds, 2288 residues, 8 models selected
> select ~sel & ##selected
Nothing selected
> select #60.1.5/F:108
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #60.1.5
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> select add #60.2.33/h:126
2188 atoms, 2200 bonds, 287 residues, 2 models selected
> select add #60.1.10/K:105
2197 atoms, 2208 bonds, 288 residues, 3 models selected
> select add #60.1.8/I:122
2205 atoms, 2215 bonds, 289 residues, 4 models selected
> select add #60.1.10/K:205
2214 atoms, 2223 bonds, 290 residues, 4 models selected
> select add #60.2.15/P:122
2222 atoms, 2230 bonds, 291 residues, 5 models selected
> select add #60.1.13/N:195
2227 atoms, 2234 bonds, 292 residues, 6 models selected
> select add #60.2.12/M:59
2235 atoms, 2241 bonds, 293 residues, 7 models selected
> select add #60.1.8
4409 atoms, 4429 bonds, 578 residues, 7 models selected
> select add #60.1.10
6573 atoms, 6608 bonds, 862 residues, 7 models selected
> select add #60.1.13
8750 atoms, 8799 bonds, 1147 residues, 7 models selected
> select add #60.2.12
10924 atoms, 10987 bonds, 1432 residues, 7 models selected
> select add #60.2.15
13098 atoms, 13175 bonds, 1717 residues, 7 models selected
> select add #60.2.33
15274 atoms, 15365 bonds, 2002 residues, 7 models selected
> select add #60.1.4/E:105
15283 atoms, 15373 bonds, 2003 residues, 8 models selected
> select add #60.1.4
17456 atoms, 17560 bonds, 2288 residues, 8 models selected
> select subtract #60.2.12/M:205
17447 atoms, 17550 bonds, 2287 residues, 8 models selected
> select add #60.2.12
17456 atoms, 17560 bonds, 2288 residues, 8 models selected
> select subtract #60.2.12
15274 atoms, 15365 bonds, 2002 residues, 7 models selected
> hide #60.1.1 models
> hide #60.1.2 models
> hide #60.1.3 models
> hide #60.1.6 models
> hide #60.1.7 models
> hide #60.1.9 models
> hide #60.1.11 models
> hide #60.1.12 models
> hide #60.1.14-33 target m
> hide #60.2.1-14 target m
> hide #60.2.16-32 target m
> hide #!60.3 models
> select clear
> select add #55.3
1579 atoms, 1594 bonds, 202 residues, 1 model selected
> select add #60.1.5/F:112
1586 atoms, 1600 bonds, 203 residues, 2 models selected
> select add #60.1.5
3761 atoms, 3789 bonds, 488 residues, 2 models selected
> hbonds sel reveal true
1613 hydrogen bonds found
> hide sel atoms
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> select add #55.2
5372 atoms, 5442 bonds, 688 residues, 3 models selected
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> ~hbonds
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> select subtract #60.1.5
3190 atoms, 3247 bonds, 402 residues, 2 models selected
> hbonds sel reveal true
1188 hydrogen bonds found
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> select subtract #55.2
1579 atoms, 1594 bonds, 202 residues, 1 model selected
> select add #55.2
3190 atoms, 3247 bonds, 134 pseudobonds, 402 residues, 3 models selected
> select subtract #55.3
1611 atoms, 1653 bonds, 134 pseudobonds, 200 residues, 2 models selected
> select add #55.3
3190 atoms, 3247 bonds, 346 pseudobonds, 402 residues, 3 models selected
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> select add #18
3190 atoms, 3247 bonds, 1188 pseudobonds, 402 residues, 3 models selected
> select subtract #18
3190 atoms, 3247 bonds, 402 residues, 2 models selected
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
34774 distances
> hide #!55 models
> select add #55
8049 atoms, 8252 bonds, 9755 pseudobonds, 996 residues, 8 models selected
> select subtract #55
Nothing selected
> close #18-19
> show #60.2 target m
> show #60.1.1-33 target m
> show #!60.3 models
> show #!6 models
> hide #!6 models
> hide #60.1.1-33#60.2.1-33#60.3.1-33 atoms
> show #60.1.1-33#60.2.1-33#60.3.1-33 cartoons
> select #60.1.8/I:112
7 atoms, 6 bonds, 1 residue, 1 model selected
> select subtract #60.1.8/I:112
Nothing selected
> select #60.1.8/I:112
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #60.1.9/J:195
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #60.1.33/h:195
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #60.2.7/H:45
4 atoms, 3 bonds, 1 residue, 1 model selected
> select clear
> select #60.1.8/I:108
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #60.1.9/J:94
13 atoms, 11 bonds, 2 residues, 2 models selected
> select add #60.1.33/h:195
18 atoms, 15 bonds, 3 residues, 3 models selected
> hide #60.1.1-7 target m
> hide #60.1.10-32 target m
> hide #!60.2 models
> hide #!60.3 models
> select add #60.1
72006 atoms, 72435 bonds, 9438 residues, 34 models selected
> select subtract #60.1
Nothing selected
> color #60.1.8 #fff6b6ff
> color #60.1.9 #ffdb8eff
> color #60.1.9 #ffd72aff
> color #60.1.9 #ffe58aff
> color #60.1.9 #e700ffff
> color #60.1.9 #ff8e00ff
> color #60.1.9 #febe0eff
> color #60.1.9 #fdd900ff
> color #60.1.9 #febe0eff
> color #60.1.9 #ffb512ff
> color #60.1.33 #fff6b6ff
> show #60.1.8-9,33 surfaces
> show #!55 models
> show #60.1.7 models
> hide #60.1.7 models
> show #60.1.1-7 target m
> hide #60.1.1-7 target m
> show #60.1.10-32 target m
> hide #60.1.10-32 target m
> show #!60.2 models
> show #60.1.1-7,10-32#!60.1.8-9 target m
> select #60.2.33/h:122
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #60.2
72006 atoms, 72435 bonds, 9438 residues, 34 models selected
> select add #60
216018 atoms, 217305 bonds, 28314 residues, 103 models selected
> select subtract #60
3 models selected
> color #60.1.31 #ffb512ff
> select #60.2.33/h:122
8 atoms, 7 bonds, 1 residue, 1 model selected
> color #60.2 #ffb512ff models
> select add #60.2.33
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> select subtract #60.2.33
Nothing selected
> select add #60.2.33
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> show sel surfaces
> select #60.2.7/H:209
9 atoms, 8 bonds, 1 residue, 1 model selected
> color #60.2.7 #fff6b6ff
> select add #60.2.7
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> show sel surfaces
> select #60.1.5/F:111
9 atoms, 8 bonds, 1 residue, 1 model selected
> color #60.1.5 #ffb512ff
> select add #60.1.5
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> show sel surfaces
> select #60.1.5/F:55@NE2
1 atom, 1 residue, 1 model selected
> select #60.1.4/E:198
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #60.1.4/E:122
8 atoms, 7 bonds, 1 residue, 1 model selected
> color #60.1.4 #fff6b6ff
> select add #60.1.4
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> show sel surfaces
> select clear
> select #60.1.7/H:199
6 atoms, 5 bonds, 1 residue, 1 model selected
> color #60.1.7 #ffb512ff
> select add #60.1.7
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> show sel surfaces
> select #60.1.10/K:195
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #60.1.11/L:111
14 atoms, 12 bonds, 2 residues, 2 models selected
> select add #60.1.10
2191 atoms, 2203 bonds, 287 residues, 2 models selected
> select add #60.1.11
4364 atoms, 4390 bonds, 572 residues, 2 models selected
> show sel surfaces
> select #60.1.33/h:195@CB
1 atom, 1 residue, 1 model selected
> select add #60.1.33
2182 atoms, 2195 bonds, 286 residues, 2 models selected
> hide sel surfaces
> select #60.1.7/H:209@NZ
1 atom, 1 residue, 1 model selected
> select add #60.1.7
2182 atoms, 2195 bonds, 286 residues, 2 models selected
> hide sel surfaces
> select clear
> select #60.2.12/M:195
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #60.2
72006 atoms, 72435 bonds, 9438 residues, 34 models selected
> select subtract #60.2
2 models selected
> select #60.2.12/M:205
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #60.2.12
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> show sel surfaces
> select clear
> select #60.1.10/K:192@OG1
1 atom, 1 residue, 1 model selected
> color #60.1.10 #fff6b6ff
> select #60.1.11/L:183@CA
1 atom, 1 residue, 1 model selected
> color #60.1.11 #ffb512ff
> select #60.2.15/P:115
6 atoms, 5 bonds, 1 residue, 1 model selected
> select add #60.1.13/N:198
17 atoms, 15 bonds, 2 residues, 2 models selected
> select add #60.1.14/O:108
25 atoms, 22 bonds, 3 residues, 3 models selected
> show sel surfaces
> select add #60.1.13
2196 atoms, 2207 bonds, 288 residues, 6 models selected
> select add #60.1.14
4370 atoms, 4395 bonds, 573 residues, 6 models selected
> select add #60.2.15
6546 atoms, 6585 bonds, 858 residues, 6 models selected
> show sel surfaces
> select #60.2.15/P:209@O
1 atom, 1 residue, 1 model selected
> select #60.2.15/P:183@O
1 atom, 1 residue, 1 model selected
> color #60.2.15 #fff6b6ff
> select #60.1.13/N:183@O
1 atom, 1 residue, 1 model selected
> color #60.1.13 #ffb512ff
> select #60.1.14/O:184@CA
1 atom, 1 residue, 1 model selected
> color #60.1.14 #fff6b6ff
> select add #55
8050 atoms, 8252 bonds, 997 residues, 8 models selected
> select add #60
224067 atoms, 225557 bonds, 29310 residues, 110 models selected
> select subtract #60
8049 atoms, 8252 bonds, 996 residues, 20 models selected
> show sel surfaces
> select clear
Drag select of 2151 residues
> select clear
> select add #60.2.7/H:178@CA
1 atom, 1 residue, 1 model selected
> select add #60.2.33/h:191@OE2
2 atoms, 2 residues, 3 models selected
> select add #60.2.12/M:184@CA
3 atoms, 3 residues, 5 models selected
> select add #60.1.5/F:191@OE2
4 atoms, 4 residues, 7 models selected
> select add #60.1.4/E:185@CB
5 atoms, 5 residues, 9 models selected
> hide #!55 models
> select add #60.1.8/I:181@CG
6 atoms, 6 residues, 11 models selected
> select add #60.1.9/J:184@OD1
7 atoms, 7 residues, 13 models selected
> select add #60.1.10/K:180@CB
8 atoms, 8 residues, 15 models selected
> select add #60.1.11/L:180@NH1
9 atoms, 9 residues, 17 models selected
> select add #60.2.15/P:185@OE2
10 atoms, 10 residues, 19 models selected
> select add #60.1.13/N:180@CD
11 atoms, 11 residues, 21 models selected
> select add #60.1.14/O:185@CG
12 atoms, 12 residues, 23 models selected
> hide #60.1.1-3 target m
> hide #60.1.6#!60.1.7 target m
> hide #60.1.12 models
> hide #60.1.15-32#!60.1.33 target m
> hide #60.2.1-6 target m
> hide #60.2.8-11 target m
> hide #60.2.13 models
> hide #60.2.14 models
> hide #60.2.16-32#!60.2.33 target m
> show #!60.2.33 models
> select clear
> show #!54 models
> hide #!54 models
> show #!55 models
> show #!14 models
> hide #!14 models
> show #13 models
> hide #13 models
> show #!7 models
> hide #7.1,4,8,19,22,25,28,31#!55.1-5#!60.1.4-5,8-11,13-14#!60.2.7,12,15,33
> atoms
> show #7.1,4,8,19,22,25,28,31#!55.1-5#!60.1.4-5,8-11,13-14#!60.2.7,12,15,33
> surfaces
> show #61 models
> color #61 #a9fab5ff
> show
> #61#!7.1,4,8,19,22,25,28,31#!55.1-5#!60.1.4-5,8-11,13-14#!60.2.7,12,15,33
> surfaces
> show
> #!61#!7.1,4,8,19,22,25,28,31#!55.1-5#!60.1.4-5,8-11,13-14#!60.2.7,12,15,33
> surfaces
> hide #!61 models
> show #7.32 models
> hide #7.32 models
> show #7.33 models
> hide #7.33 models
> show #7.30 models
> hide #7.30 models
> show #7.2 models
> hide #7.2 models
> show #7.3 models
> hide #7.3 models
> show #7.5 models
> hide #7.5 models
> show #7.7 models
> hide #7.7 models
> show #7.17 models
> hide #7.17 models
> show #7.17 models
> show #7.18 models
> hide #7.18 models
> show #7.20 models
> hide #7.20 models
> show #7.21 models
> hide #7.21 models
> show #7.18 models
> show
> #7.17-18#!7.1,4,8,19,22,25,28,31#!55.1-5#!60.1.4-5,8-11,13-14#!60.2.7,12,15,33
> surfaces
> show #!56 models
> show #!57 models
> show
> #56.1-5#57.1-5#!7.1,4,8,17-19,22,25,28,31#!55.1-5#!60.1.4-5,8-11,13-14#!60.2.7,12,15,33
> surfaces
> hide #!60 models
> show #7.20 models
> hide #7.20 models
> show #7.21 models
> hide #7.21 models
> show #7.23 models
> hide #7.23 models
> show #7.26 models
> hide #7.26 models
> show #7.29 models
> hide #7.29 models
> show #7.32 models
> hide #7.32 models
> show #7.5 models
> hide #7.5 models
> show #7.2 models
> hide #7.2 models
> show #7.2 models
> hide #7.2 models
> show #7.2 models
> hide #7.2 models
> show #7.3 models
> hide #7.3 models
> show #7.5 models
> show #7.7 models
> show #7.5,7#!7.1,4,8,17-19,22,25,28,31#!55.1-5#!56.1-5#!57.1-5 surfaces
> hide #!7.1 models
> hide #!7.22 models
> hide #!7.25 models
> hide #!7.28 models
> hide #!7.31 models
> hide #!7.4 models
> show #!7.1 models
> show #!7.4 models
> show #7.2 models
> hide #7.2 models
> show #7.20 models
> hide #7.20 models
> show #7.21 models
> hide #7.21 models
> show #!7.22 models
> hide #!7.22 models
> hide #!7.1 models
> hide #!7.4 models
> show #7.20 models
> hide #7.20 models
> show #7.21 models
> hide #7.21 models
> show #!7.22 models
> show #7.23 models
> hide #7.23 models
> show #7.23 models
> hide #7.23 models
> show #7.24 models
> show #7.23 models
> show #7.21 models
> show #7.20 models
> hide #7.24 models
> hide #7.23 models
> show #7.20-21#!7.5,7-8,17-19,22#!55.1-5#!56.1-5#!57.1-5 surfaces
> show #!14 models
> hide #!14 models
> show #!61 models
> hide #!61 models
> show #!61 models
> hide #!61#!7.5,7-8,17-22#!55.1-5#!56.1-5#!57.1-5 atoms
> hide #!7 models
> hide #!61#!55.1-5#!56.1-5#!57.1-5 surfaces
> show #!7 models
> hide #!61#!7.5,7-8,17-22#!55.1-5#!56.1-5#!57.1-5 surfaces
> hide #!7 models
> show #!6 models
> hide #!6 models
> show #!4 models
> hide #!4 models
> show #!101 models
> hide #!101 models
> show #!7 models
> select add #7
62784 atoms, 64056 bonds, 7872 residues, 25 models selected
> select subtract #7
14 models selected
> hide #!7 models
> show #!4 models
> hide #!4 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!7 models
> hide #!61 models
> show #!14 models
> ui tool show "Fit in Map"
> hide #!7 models
> show #!61 models
> show #!6 models
> hide #!6 models
> show #!1 models
> hide #!1 models
> show #3 models
> hide #3 models
> show #!2 models
> fitmap #61 inMap #2
Fit molecule FlaA1_sheath (#61) to map
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#2) using 86328 atoms
average map value = 0.07737, steps = 80
shifted from previous position = 4.16
rotated from previous position = 2.05 degrees
atoms outside contour = 54575, contour level = 0.1
Position of FlaA1_sheath (#61) relative to
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
0.95485517 0.29706878 0.00135745 -50.01252716
0.29707165 -0.95483906 -0.00555144 320.69397578
-0.00035304 0.00570409 -0.99998369 395.30619579
Axis 0.98864902 0.15024332 0.00025267
Axis point 0.00000000 163.57812531 198.12136168
Rotation angle (degrees) 179.67384894
Shift along axis -1.16282781
> fitmap #14 inMap #2
Fit map FlaA1_sheath_sym in map cryosparc_P1_J2054_003_volume_map_sharp.mrc
using 204486 points
correlation = 0.7973, correlation about mean = 0.1562, overlap = 1.1e+04
steps = 60, shift = 0.548, angle = 0.248 degrees
Position of FlaA1_sheath_sym (#14) relative to
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
0.12761319 0.99182356 0.00095845 -24.47479725
0.99180276 -0.12760407 -0.00667099 28.26910221
-0.00649414 0.00180189 -0.99997730 402.01842394
Axis 0.75086800 0.66044973 -0.00184263
Axis point 0.00000000 24.14314185 201.03284124
Rotation angle (degrees) 179.67673218
Shift along axis -0.44779185
> hide #!2 models
> show #!7 models
> hide #!61 models
> hide #!14 models
> hide #!7 models
> show #!7 models
> show #!61 models
> hide #!61 models
> show #!61 models
> hide #!61 models
> show #!61 models
> hide #!61 models
> show #!61 models
> hide #!61 models
> show #!61 models
> hide #!61 models
> show #!61 models
Drag select of 5637 residues
> hide #61.1 models
> hide #61.2 models
> hide #61.3 models
> hide #61.4 models
> hide #61.9 models
> hide #61.10 models
> hide #61.11 models
> hide #61.23 models
> hide #61.24 models
> hide #61.25 models
> hide #61.26 models
> hide #61.27 models
> hide #61.28 models
> hide #61.29 models
> hide #61.30 models
> hide #61.31 models
> hide #61.32 models
> hide #61.33 models
> select add #61
89608 atoms, 88077 bonds, 11238 residues, 25 models selected
> select subtract #61
3280 atoms, 414 residues, 39 models selected
> select clear
> hide #!7 models
> show #!7 models
> hide #61.5 models
> hide #61.6 models
> hide #61.7 models
> hide #61.8 models
> hide #!61 models
> show #!61 models
> show #61.1 models
> show #61.2 models
> show #61.3 models
> show #61.4 models
> show #61.5 models
> show #61.6 models
> show #61.7 models
> show #61.8 models
> show #61.9 models
> show #61.10 models
> show #61.11 models
> show #61.1-33 target m
> hide #61.1-33 target m
> show #61.1-33 target m
> show #!61#!7.5,7-8,17-22#!55.1-5#!56.1-5#!57.1-5 surfaces
> hide #!61#!7.5,7-8,17-22#!55.1-5#!56.1-5#!57.1-5 surfaces
> show #!61#!7.5,7-8,17-22#!55.1-5#!56.1-5#!57.1-5 cartoons
> close #61
> combine #7
> fitmap #18 inMap #2
Fit molecule combination (#18) to map
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#2) using 62784 atoms
average map value = 0.08912, steps = 64
shifted from previous position = 0.347
rotated from previous position = 0.219 degrees
atoms outside contour = 35801, contour level = 0.1
Position of combination (#18) relative to
cryosparc_P1_J2054_003_volume_map_sharp.mrc (#2) coordinates:
Matrix rotation and translation
0.96782193 -0.25162009 -0.00283083 53.75558850
-0.25163543 -0.96773436 -0.01303061 429.76496216
0.00053927 0.01332365 -0.99991108 365.09437754
Axis 0.99192253 -0.12684388 -0.00057723
Axis point 0.00000000 217.09708467 184.00121613
Rotation angle (degrees) 179.23883581
Shift along axis -1.40241930
> rename #18 FlaA1_sheath_model
> show #!59 models
> hide #!59 models
> rename #18 id #61
> split #61
Split FlaA1_sheath_model (#61) into 24 models
Chain information for FlaA1_sheath_model A #61.1
---
Chain | Description
A | No description available
Chain information for FlaA1_sheath_model B #61.2
---
Chain | Description
B | No description available
Chain information for FlaA1_sheath_model C #61.3
---
Chain | Description
C | No description available
Chain information for FlaA1_sheath_model D #61.4
---
Chain | Description
D | No description available
Chain information for FlaA1_sheath_model E #61.5
---
Chain | Description
E | No description available
Chain information for FlaA1_sheath_model G #61.6
---
Chain | Description
G | No description available
Chain information for FlaA1_sheath_model H #61.7
---
Chain | Description
H | No description available
Chain information for FlaA1_sheath_model Q #61.8
---
Chain | Description
Q | No description available
Chain information for FlaA1_sheath_model R #61.9
---
Chain | Description
R | No description available
Chain information for FlaA1_sheath_model S #61.10
---
Chain | Description
S | No description available
Chain information for FlaA1_sheath_model T #61.11
---
Chain | Description
T | No description available
Chain information for FlaA1_sheath_model U #61.12
---
Chain | Description
U | No description available
Chain information for FlaA1_sheath_model V #61.13
---
Chain | Description
V | No description available
Chain information for FlaA1_sheath_model W #61.14
---
Chain | Description
W | No description available
Chain information for FlaA1_sheath_model X #61.15
---
Chain | Description
X | No description available
Chain information for FlaA1_sheath_model Y #61.16
---
Chain | Description
Y | No description available
Chain information for FlaA1_sheath_model Z #61.17
---
Chain | Description
Z | No description available
Chain information for FlaA1_sheath_model a #61.18
---
Chain | Description
a | No description available
Chain information for FlaA1_sheath_model b #61.19
---
Chain | Description
b | No description available
Chain information for FlaA1_sheath_model c #61.20
---
Chain | Description
c | No description available
Chain information for FlaA1_sheath_model d #61.21
---
Chain | Description
d | No description available
Chain information for FlaA1_sheath_model e #61.22
---
Chain | Description
e | No description available
Chain information for FlaA1_sheath_model f #61.23
---
Chain | Description
f | No description available
Chain information for FlaA1_sheath_model g #61.24
---
Chain | Description
g | No description available
> combine #61
> hide #!61 models
> rename #18 FlaA1_sheath_model
> rename #18 FlaA1_sheath_sym_part
> rename #61 FlaA1_sheath_sym_part
> close #7
> rename #61 id #7
> rename #18 id #61
> show #!14 models
> hide #!14 models
> hide #61 models
> show #!8 models
> hide #!8 models
> show #!7 models
> show #3 models
> hide #3 models
> show #!4 models
> hide #!4 models
> color #7 #a9fab5ff models
> show #!59 models
> hide
> #7.1-24#59.1-2,4-8,10-11,13,15-17,19-26,28-29,31,33#!55.1-5#!56.1-5#!57.1-5#!59.3,9,12,14,18,27,30,32
> atoms
> select add #59
86328 atoms, 88077 bonds, 10824 residues, 34 models selected
> ui mousemode right "translate selected models"
> ui mousemode right "rotate selected models"
> view matrix models
> #59,0.21701,0.97616,0.0036612,-42.597,0.97614,-0.21697,-0.0083389,36.872,-0.0073457,0.0053834,-0.99996,380.1
> view matrix models
> #59,0.59424,0.80413,0.015794,-83.97,0.77813,-0.56984,-0.26419,193.11,-0.20344,0.16928,-0.96434,378.54
> view matrix models
> #59,0.76892,-0.62618,-0.12907,185.57,-0.63897,-0.74574,-0.18866,484.35,0.02188,0.22754,-0.97352,325.97
> view matrix models
> #59,0.84662,-0.5261,-0.080315,141.9,-0.52939,-0.81702,-0.22852,485.26,0.054604,0.23598,-0.97022,317.51
> view matrix models
> #59,0.99415,-0.10773,0.0076516,16.545,-0.10556,-0.98421,-0.14211,418.94,0.022841,0.14047,-0.98982,345.68
> view matrix models
> #59,-0.17857,0.98375,0.018903,29.235,0.93927,0.17616,-0.29452,24.629,-0.29307,-0.034839,-0.95546,433.18
> view matrix models
> #59,-0.80734,0.57862,0.1158,208.11,0.51355,0.78561,-0.34507,-1.0586,-0.29064,-0.21912,-0.93141,463.35
> view matrix models
> #59,-0.67541,0.73681,0.030427,168.43,0.68687,0.64358,-0.33766,-8.047,-0.26838,-0.20716,-0.94078,458.56
> view matrix models
> #59,-0.50701,0.86169,-0.020661,121.85,0.80916,0.46757,-0.35585,5.5706,-0.29697,-0.19714,-0.93431,460.89
> show #!4 models
> hide #!4 models
> show #!6 models
> hide #!6 models
> show #!2 models
> combine #59
> show #!14 models
> hide #!2 models
> fitmap #18 inMap #14
Fit molecule combination (#18) to map FlaA1_sheath_sym (#14) using 86328 atoms
average map value = 0.2651, steps = 264
shifted from previous position = 11.7
rotated from previous position = 20.9 degrees
atoms outside contour = 53279, contour level = 0.28858
Position of combination (#18) relative to FlaA1_sheath_sym (#14) coordinates:
Matrix rotation and translation
0.83521816 0.54991874 -0.00026439 -73.94763915
-0.54991880 0.83521802 -0.00043092 137.51060350
-0.00001613 0.00050530 0.99999988 23.73605824
Axis 0.00085123 -0.00022572 -0.99999961
Axis point 192.48114074 192.10976320 0.00000000
Rotation angle (degrees) 33.36145449
Shift along axis -23.83003520
> select subtract #59
8 models selected
> hide #!59 models
> hide #!14 models
> show #!14 models
> hide #!14 models
> hide #!55 models
> hide #!56 models
> hide #!57 models
> select add #18
86328 atoms, 88077 bonds, 10824 residues, 1 model selected
> view matrix models
> #18,-0.98573,0.030218,-0.16559,406.01,0.060978,0.98104,-0.18397,29.786,0.15689,-0.19144,-0.96888,377.5
> fitmap #18 inMap #14
Fit molecule combination (#18) to map FlaA1_sheath_sym (#14) using 86328 atoms
average map value = 0.2718, steps = 208
shifted from previous position = 5.49
rotated from previous position = 14.6 degrees
atoms outside contour = 52472, contour level = 0.28858
Position of combination (#18) relative to FlaA1_sheath_sym (#14) coordinates:
Matrix rotation and translation
-0.15103636 0.98852808 -0.00050224 31.39489080
-0.98852819 -0.15103653 -0.00025824 411.36631372
-0.00033112 0.00045746 0.99999984 19.03310702
Axis 0.00036201 -0.00008655 -0.99999993
Axis point 192.34410924 192.19815797 0.00000000
Rotation angle (degrees) 98.68699930
Shift along axis -19.05734537
> select subtract #18
Nothing selected
> rename #18 FlaA_all_sym_model
> show #!55 models
> show #!56 models
> show #!57 models
> show #18#7.1-24#!55.1-5#!56.1-5#!57.1-5 surfaces
> show #!18#!7.1-24#!55.1-5#!56.1-5#!57.1-5 surfaces
> hide #!55 models
> hide #!18 models
> hide #!7.1-24#!56.1-5#!57.1-5 surfaces
> show #5 models
> color #5 #a9fab5ff
> color #5 #fff6b6ff
> show #13 models
> color #13 #fff6b6ff
> hide #5 models
> show #!55 models
> hide #13#!7.1-24#!55.1-5#!56.1-5#!57.1-5 surfaces
> hide #13#!7.1-24#!55.1-5#!56.1-5#!57.1-5 atoms
> hide #!55 models
> hide #!57 models
> ui mousemode right select
> select #7.4/D:311
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #7.4/D:298
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #7.1/A:303
17 atoms, 15 bonds, 2 residues, 3 models selected
> select add #7.22/e:304
26 atoms, 23 bonds, 3 residues, 5 models selected
> select add #7.19/b:304
35 atoms, 31 bonds, 4 residues, 7 models selected
> select add #7.16/Y:308
42 atoms, 37 bonds, 5 residues, 9 models selected
> select add #7.13/V:304
51 atoms, 45 bonds, 6 residues, 11 models selected
> select add #7.10/S:309
60 atoms, 53 bonds, 7 residues, 13 models selected
> hide #!7.2 models
> hide #!7.3 models
> hide #!7.5 models
> hide #!7.6 models
> hide #!7.7 models
> hide #!7.8 models
> hide #!7.9 models
> hide #!7.11 models
> hide #!7.12 models
> show #!7.9 models
> hide #!7.9 models
> show #!7.8 models
> hide #!7.8 models
> show #!7.7 models
> hide #!7.14 models
> hide #!7.15 models
> hide #!7.17 models
> hide #!7.18 models
> hide #!7.20 models
> hide #!7.21 models
> hide #!7.23 models
> hide #!7.24 models
> select add #7
62784 atoms, 64056 bonds, 7872 residues, 32 models selected
> select subtract #7
24 models selected
> show #13#!7.1,4,7,10,13,16,19,22#!56.1-5 surfaces
> view orient
> hide #!13#!7.1,4,7,10,13,16,19,22#!56.1-5 surfaces
> show #!13#!7.1,4,7,10,13,16,19,22#!56.1-5 surfaces
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/3-one-
> layer_top.png width 1625 height 1210 supersample 3 transparentBackground
> true
> hide #!13#!7.1,4,7,10,13,16,19,22#!56.1-5 atoms
> show #!13#!7.1,4,7,10,13,16,19,22#!56.1-5 atoms
> hide #!13#!7.1,4,7,10,13,16,19,22#!56.1-5 atoms
> show #!13#!7.1,4,7,10,13,16,19,22#!56.1-5 cartoons
> hide #!13#!7.1,4,7,10,13,16,19,22#!56.1-5 surfaces
> interfaces #!13#!7.1,4,7,10,13,16,19,22#!56.1-5 & ~solvent
21 buried areas: #13/q #13/u 1878, #13/3 #13/H 1878, #13/1 #13/w 1861, #13/b
#13/i 1850, #13/M #13/b 1847, #13/k #13/o 1843, #7.10/S #7.7/H 1315, #7.19/b
#7.16/Y 1313, #7.22/e #7.1/A 1305, #56.2/B #56.3/C 1112, #56.4/D #56.1/A 703,
#13/o #13/q 640, #13/u #13/w 639, #13/H #13/M 633, #13/i #13/k 630, #13/1
#13/3 627, #56.1/A #56.2/B 596, #7.4/D #56.5/E 487, #56.4/D #56.5/E 424, #13/b
#56.2/B 326, #7.10/S #56.3/C 318
> show sel atoms
> style sel sphere
Changed 679 atom styles
> select clear
> show #5 models
> hide #5 models
> show #!57 models
> select clear
> interfaces #!13#!7.1,4,7,10,13,16,19,22#!56.1-5#!57.1-5 & ~solvent
31 buried areas: #13/q #13/u 1878, #13/3 #13/H 1878, #13/1 #13/w 1861, #13/b
#13/i 1850, #13/M #13/b 1847, #13/k #13/o 1843, #7.10/S #7.7/H 1315, #7.19/b
#7.16/Y 1313, #7.22/e #7.1/A 1305, #57.2/B #57.3/C 1112, #56.2/B #56.3/C 1112,
#57.3/C #56.3/C 806, #56.2/B #57.2/B 797, #56.4/D #56.1/A 703, #57.4/D #57.1/A
703, #13/o #13/q 640, #13/u #13/w 639, #13/H #13/M 633, #13/i #13/k 630, #13/1
#13/3 627, #56.1/A #57.1/A 626, #56.5/E #57.5/E 623, #56.1/A #56.2/B 596,
#57.1/A #57.2/B 596, #56.4/D #57.4/D 559, #7.4/D #56.5/E 487, #57.4/D #56.5/E
447, #56.4/D #56.5/E 424, #57.4/D #57.5/E 424, #13/b #56.2/B 326, #7.10/S
#56.3/C 318
> hide #!13 models
> show #!13 models
> hide #13.1-11 target m
> show #13.1-11 target m
> select add #13
24002 atoms, 24145 bonds, 3146 residues, 1 model selected
> show sel cartoons
> select subtract #13
11 models selected
> select add #7
62784 atoms, 64056 bonds, 7872 residues, 25 models selected
> show sel & #!7.1,4,7,10,13,16,19,22 cartoons
> show #!55 models
> select add #55
70833 atoms, 72308 bonds, 8868 residues, 55 models selected
> select add #56
78882 atoms, 80560 bonds, 9864 residues, 66 models selected
> select add #57
86931 atoms, 88812 bonds, 10860 residues, 77 models selected
> show sel & #!7.1,4,7,10,13,16,19,22#!55.1-5#!56.1-5#!57.1-5 cartoons
> select subtract #55
78882 atoms, 80560 bonds, 9864 residues, 76 models selected
> select subtract #56
70833 atoms, 72308 bonds, 8868 residues, 65 models selected
> select subtract #57
62784 atoms, 64056 bonds, 7872 residues, 54 models selected
> select subtract #7
24 models selected
> hide #!55 models
> interfaces #!13#!7.1,4,7,10,13,16,19,22#!56.1-5#!57.1-5 & ~solvent
31 buried areas: #13/q #13/u 1878, #13/3 #13/H 1878, #13/1 #13/w 1861, #13/b
#13/i 1850, #13/M #13/b 1847, #13/k #13/o 1843, #7.10/S #7.7/H 1315, #7.19/b
#7.16/Y 1313, #7.22/e #7.1/A 1305, #57.2/B #57.3/C 1112, #56.2/B #56.3/C 1112,
#57.3/C #56.3/C 806, #56.2/B #57.2/B 797, #56.4/D #56.1/A 703, #57.4/D #57.1/A
703, #13/o #13/q 640, #13/u #13/w 639, #13/H #13/M 633, #13/i #13/k 630, #13/1
#13/3 627, #56.1/A #57.1/A 626, #56.5/E #57.5/E 623, #56.1/A #56.2/B 596,
#57.1/A #57.2/B 596, #56.4/D #57.4/D 559, #7.4/D #56.5/E 487, #57.4/D #56.5/E
447, #56.4/D #56.5/E 424, #57.4/D #57.5/E 424, #13/b #56.2/B 326, #7.10/S
#56.3/C 318
> select clear
> select add #56.1
6996 atoms, 1676 bonds, 885 residues, 8 models selected
> select subtract #56.1
5372 atoms, 688 residues, 7 models selected
> hide #!56.1 models
> hide #!56.4 models
> show #!56.4 models
> hide #!56.4 models
> show #!56.4 models
> hide #!56.5 models
> show #!56.5 models
> hide #!57.2 models
> hide #!56.3 models
> select clear
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
82884 distances
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #13/b:144
16 atoms, 14 bonds, 1 pseudobond, 2 residues, 4 models selected
> select subtract #13/b:144
9 atoms, 8 bonds, 1 residue, 3 models selected
> select clear
> select add #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #13/b:144
16 atoms, 14 bonds, 2 residues, 3 models selected
> show sel atoms
> style sel stick
Changed 16 atom styles
> hide sel cartoons
> select #56.2/B:157
11 atoms, 11 bonds, 1 residue, 1 model selected
> select clear
> select add #56.2/B:159
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #56.2/B:157
19 atoms, 18 bonds, 2 residues, 2 models selected
> select #13/b:208
9 atoms, 8 bonds, 1 residue, 1 model selected
> select clear
> select #56.2/B:159
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #56.2/B:157
19 atoms, 18 bonds, 2 residues, 2 models selected
> select add #56.2/B:158@CA
20 atoms, 18 bonds, 3 residues, 2 models selected
> select clear
> select #56.2/B:158@N
1 atom, 1 residue, 1 model selected
> select clear
> select #56.2/B:157
11 atoms, 11 bonds, 1 residue, 1 model selected
> select add #56.2/B:159
19 atoms, 18 bonds, 2 residues, 2 models selected
> hide sel cartoons
> show sel atoms
> style sel stick
Changed 19 atom styles
> select clear
> select #56.2/B:159@CA
1 atom, 1 residue, 1 model selected
> select add #56.2
1611 atoms, 1653 bonds, 1722 pseudobonds, 200 residues, 3 models selected
> show sel cartoons
> hide sel atoms
> select clear
> select #13/b:144@O
1 atom, 1 residue, 1 model selected
> select #13/b:143
9 atoms, 8 bonds, 1 residue, 1 model selected
> select subtract #13.5
1 model selected
> select add #13.5
2182 atoms, 286 residues, 1 model selected
> show sel cartoons
> hide sel atoms
> select clear
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #56.2/B:159
17 atoms, 15 bonds, 2 residues, 2 models selected
> select add #56.2/B:157
28 atoms, 26 bonds, 3 residues, 2 models selected
> hide (#!56.2 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!56.2 & sel-residues)
> show (#!56.2 & sel-residues & backbone) target ab
> select #13/b:144
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #13/b:145
11 atoms, 9 bonds, 2 residues, 2 models selected
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> select add #13/b:146
20 atoms, 17 bonds, 3 residues, 2 models selected
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> select clear
> hide #19 models
> show #19 models
> select #56.2/B:158@O
1 atom, 1 residue, 1 model selected
> select clear
> select #13/b:144@C
1 atom, 1 residue, 1 model selected
> select clear
> select #13/b:149
7 atoms, 6 bonds, 1 residue, 1 model selected
> select subtract #13.5
1 model selected
> select add #13.5
2182 atoms, 286 residues, 1 model selected
> select add #56.2
3793 atoms, 1653 bonds, 1722 pseudobonds, 486 residues, 4 models selected
Alignment identifier is 56.2/B
Alignment identifier is 13/b
> select clear
> select #13/b:144@C
1 atom, 1 residue, 1 model selected
> select #13/b:144
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #56.2/B:158@C
8 atoms, 6 bonds, 2 residues, 3 models selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #13/b:137
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #13/b:166
11 atoms, 10 bonds, 1 residue, 1 model selected
> select clear
> select #13/b:144@C
1 atom, 1 residue, 1 model selected
> select #13/b:144
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #13/b:144
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel atoms
> hide sel atoms
> show sel cartoons
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> style sel ball
Changed 7 atom styles
> select #13/b:145
4 atoms, 3 bonds, 1 residue, 1 model selected
> select #13/b:144-145
11 atoms, 10 bonds, 2 residues, 1 model selected
> style sel ball
Changed 11 atom styles
> color (#!13 & sel) byhetero
> select clear
> select #56.2/B:157@C
1 atom, 1 residue, 1 model selected
> select #56.2/B:156
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #56.2/B:156-158
31 atoms, 31 bonds, 3 pseudobonds, 3 residues, 2 models selected
> select #56.2/B:159
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #56.2/B:157-159
28 atoms, 28 bonds, 3 residues, 1 model selected
> style sel ball
Changed 28 atom styles
> color (#!56.2 & sel) byhetero
> select ~sel & ##selected
82884 pseudobonds, 1 model selected
> select clear
> hide #19 models
> show #19 models
> select add #19
82884 pseudobonds, 1 model selected
> hide #19 target m
> show #19 target m
> split #19
> select clear
> hide #19 target m
> show #19 models
> select add #19
82884 pseudobonds, 1 model selected
> select subtract #19
Nothing selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #56.2/B:158-159
17 atoms, 16 bonds, 2 residues, 1 model selected
> select
> #56.2/B:47-53,61-65,70-78,99-107,114-119,128-137,144-150,156-163,169-175,201-208,217-223,225-230
737 atoms, 744 bonds, 709 pseudobonds, 89 residues, 2 models selected
> select add #19
737 atoms, 744 bonds, 82884 pseudobonds, 89 residues, 3 models selected
> select subtract #19
737 atoms, 744 bonds, 89 residues, 2 models selected
> hide #19 models
> select clear
> hbonds #!13#!7.1,4,7,10,13,16,19,22#!56.2,4-5#!57.1,3-5 reveal true
30225 hydrogen bonds found
> hide #!13#!7.1,4,7,10,13,16,19,22#!56.2,4-5#!57.1,3-5 atoms
> select add #56.2
1611 atoms, 1653 bonds, 1856 pseudobonds, 200 residues, 3 models selected
> show sel cartoons
> select #13/b:81
9 atoms, 8 bonds, 1 residue, 1 model selected
> select subtract #13.5
1 model selected
> select add #13.5
2182 atoms, 286 residues, 1 model selected
> show sel cartoons
> select clear
> interfaces #!13#!7.1,4,7,10,13,16,19,22#!56.2,4-5#!57.1,3-5 & ~solvent
22 buried areas: #13/q #13/u 1878, #13/3 #13/H 1878, #13/1 #13/w 1861, #13/b
#13/i 1850, #13/M #13/b 1847, #13/k #13/o 1843, #7.10/S #7.7/H 1315, #7.19/b
#7.16/Y 1313, #7.22/e #7.1/A 1305, #57.4/D #57.1/A 703, #13/o #13/q 640, #13/u
#13/w 639, #13/H #13/M 633, #13/i #13/k 630, #13/1 #13/3 627, #56.5/E #57.5/E
623, #56.4/D #57.4/D 559, #7.4/D #56.5/E 487, #57.4/D #56.5/E 447, #56.4/D
#56.5/E 424, #57.4/D #57.5/E 424, #13/b #56.2/B 326
Alignment identifier is 1
Alignment identifier is 2
Alignment identifier is 3
Alignment identifier is 4
Alignment identifier is 5
Alignment identifier is 6
Alignment identifier is 7
Alignment identifier is 8
> select #13/b:212
9 atoms, 8 bonds, 1 residue, 1 model selected
> select subtract #13.5
1 model selected
> select add #13.5
2182 atoms, 286 residues, 1 model selected
> select add #56.2
3793 atoms, 1653 bonds, 1856 pseudobonds, 486 residues, 5 models selected
Alignment identifier is 56.2/B
Alignment identifier is 13/b
> select clear
> hbonds #!13#!7.1,4,7,10,13,16,19,22#!56.2,4-5#!57.1,3-5 reveal true
30225 hydrogen bonds found
> hide #!13#!7.1,4,7,10,13,16,19,22#!56.2,4-5#!57.1,3-5 atoms
> show #19 models
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> show sel atoms
> select #56.2/B:159
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> hide sel atoms
> select #56.2/B:159
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #56.2/B:158
17 atoms, 15 bonds, 2 residues, 2 models selected
> select add #56.2/B:157
28 atoms, 26 bonds, 3 residues, 2 models selected
> hide (#!56.2 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!56.2 & sel-residues)
> show (#!56.2 & sel-residues & backbone) target ab
> show sel atoms
> select #13/b:144
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #13/b:145
11 atoms, 9 bonds, 2 residues, 2 models selected
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> show sel atoms
> select #56.2/B:158@C
1 atom, 1 residue, 1 model selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> ui tool show Distances
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
Exactly two atoms must be selected!
> select #56.2/B:158@CA
1 atom, 1 residue, 1 model selected
> select #13/b:144@O
1 atom, 1 residue, 1 model selected
> select add #56.2/B:158@O
2 atoms, 2 residues, 3 models selected
> select add #56.2/B:158@N
3 atoms, 2 residues, 4 models selected
Exactly two atoms must be selected!
> select subtract #56.2/B:158@N
2 atoms, 2 residues, 4 models selected
> distance #13/b:144@O #56.2/B:158@O
Distance between core_one_layer #13/b THR 144 O and Asym_part_2 B #56.2/B GLU
158 O: 3.188Å
> select subtract #56.2/B:158@O
1 atom, 1 residue, 3 models selected
> select add #56.2/B:158@N
2 atoms, 2 residues, 3 models selected
> distance #13/b:144@O #56.2/B:158@N
Distance between core_one_layer #13/b THR 144 O and Asym_part_2 B #56.2/B GLU
158 N: 3.561Å
> hide #19 models
> hide #20 models
> select clear
> select #13/b:146
9 atoms, 8 bonds, 1 pseudobond, 1 residue, 2 models selected
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> select #13/b:147
8 atoms, 7 bonds, 1 residue, 1 model selected
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> style sel ball
Changed 8 atom styles
> select #13/b:146@C
1 atom, 1 residue, 1 model selected
> select #13/b:146
9 atoms, 8 bonds, 1 pseudobond, 1 residue, 2 models selected
> select #13/b:146-149
31 atoms, 30 bonds, 9 pseudobonds, 4 residues, 3 models selected
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> style sel ball
Changed 31 atom styles
> color (#!13 & sel) byhetero
> color (#!13 & sel) #fff6b6ff
> select #13/b:145
4 atoms, 3 bonds, 1 residue, 1 model selected
> select #13/b:142-145
31 atoms, 30 bonds, 6 pseudobonds, 4 residues, 3 models selected
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> style sel ball
Changed 31 atom styles
> select clear
> select #56.2/B:156
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #56.2/B:156-159
39 atoms, 39 bonds, 3 pseudobonds, 4 residues, 2 models selected
> select #56.2/B:157
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #56.2/B:157-161
47 atoms, 48 bonds, 5 pseudobonds, 5 residues, 2 models selected
> select #56.2/B:157
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #56.2/B:157-160
40 atoms, 41 bonds, 1 pseudobond, 4 residues, 2 models selected
> select #56.2/B:157
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #56.2/B:157-159
28 atoms, 28 bonds, 3 residues, 1 model selected
> hide (#!56.2 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!56.2 & sel-residues)
> show (#!56.2 & sel-residues & backbone) target ab
> style sel ball
Changed 28 atom styles
> select clear
> select #56.2/B:157
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #56.2/B:157-159
28 atoms, 28 bonds, 3 residues, 1 model selected
> hide (#!56.2 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!56.2 & sel-residues)
> show (#!56.2 & sel-residues & backbone) target ab
> style sel ball
Changed 28 atom styles
> select #56.2/B:159@CA
1 atom, 1 residue, 1 model selected
> select #56.2/B:159
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #56.2/B:159
8 atoms, 7 bonds, 1 residue, 1 model selected
> color (#!56.2 & sel) #ff97f2ff
> color (#!56.2 & sel) #76609fff
> select clear
> select #56.2/B:157
11 atoms, 11 bonds, 1 residue, 1 model selected
> select add #56.2/B:158
20 atoms, 19 bonds, 2 residues, 2 models selected
> select add #56.2/B:159
28 atoms, 26 bonds, 3 residues, 2 models selected
> hide (#!56.2 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!56.2 & sel-residues)
> show (#!56.2 & sel-residues & backbone) target ab
> select #13/b:144
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #13/b:142
11 atoms, 10 bonds, 1 residue, 1 model selected
> select #13/b:142-145
31 atoms, 30 bonds, 6 pseudobonds, 4 residues, 3 models selected
> select #13/b:142-146
40 atoms, 39 bonds, 20 pseudobonds, 5 residues, 3 models selected
> select #13/b:142-148
55 atoms, 54 bonds, 35 pseudobonds, 7 residues, 3 models selected
> hide (#!13 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!13 & sel-residues)
> show (#!13 & sel-residues & backbone) target ab
> select clear
> color #21 #3587b7ff models
> select clear
> label height 1
> select add #21.1
1 model selected
> ui mousemode right "translate selected models"
> view matrix models #21.1,1,0,0,0.82189,0,1,0,-1.1496,0,0,1,-1.5395
> view matrix models
> #21.1,0.99998,0.0028934,-0.0048498,1.4204,-0.0028967,1,-0.000677,-0.62005,0.0048478,0.00069104,0.99999,-2.2849
> view matrix models
> #21.1,0.99998,0.0028934,-0.0048498,0.18169,-0.0028967,1,-0.000677,-0.025843,0.0048478,0.00069104,0.99999,-0.4327
> select subtract #21.1
Nothing selected
> select add #21.1
1 model selected
> split #21.1
> view matrix models
> #21.1,0.99998,0.0028934,-0.0048498,1.2847,-0.0028967,1,-0.000677,-1.6225,0.0048478,0.00069104,0.99999,-2.5209
> view matrix models
> #21.1,0.99998,0.0028934,-0.0048498,0.41088,-0.0028967,1,-0.000677,-0.68711,0.0048478,0.00069104,0.99999,-1.0021
> select subtract #21.1
Nothing selected
> hide #21.1 models
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> view matrix models
> #56.2,0.85836,0.51286,-0.013572,-69.545,-0.51293,0.85843,-0.0015432,126.11,0.010859,0.0082861,0.99991,-30.671
> ui mousemode right select
> select clear
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaB1_FlaA3_inter.png
> width 1625 height 1210 supersample 3 transparentBackground true
> select #56.2/B:158@N
1 atom, 1 residue, 1 model selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #56.2/B:158
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #13/b:144@C
1 atom, 1 residue, 1 model selected
> select #13/b:144
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #13/b:144
7 atoms, 6 bonds, 1 residue, 1 model selected
> show #21.1 models
> hide #21.1 models
> select clear
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaB1_FlaA3_complex.png
> width 1625 height 1210 supersample 3 transparentBackground true
> show #!57.2 models
> show #!56.3 models
> show #!56.1 models
> show #!60 models
> show #60.1.12 models
> hide #60.1.12 models
> show #60.1.15 models
> hide #60.1.15 models
> show #60.1.6 models
> hide #60.1.6 models
> show
> #60.1.1-3,6,12,15-32#60.2.1-6,8-11,13-14,16-32#!60.2#!60.1.4-5,7-11,13-14,33#!60.2.7,12,15,33
> target m
> hide
> #60.1.1-3,6,12,15-32#60.2.1-6,8-11,13-14,16-32#!60.2#!60.1.4-5,7-11,13-14,33#!60.2.7,12,15,33
> target m
> show #!60.3 models
> show
> #60.1.1-3,6,12,15-32#60.2.1-6,8-11,13-14,16-32#!60.2#!60.1.4-5,7-11,13-14,33#!60.2.7,12,15,33
> target m
> select #60.1.7/H:199
6 atoms, 5 bonds, 1 residue, 1 model selected
> select add #60.1.7
2182 atoms, 2195 bonds, 286 residues, 2 models selected
> hide #60.1.1-3,6#!60.1.4-5 target m
> hide #60.1.12,15-32#!60.1.8-11,13-14,33 target m
> hide #!60.2 models
> hide #!60.3 models
> hide sel atoms
> show sel cartoons
> color #60.1.7 #fff6b6ff
> color #60.1.7 #ffdb8eff
> color #60.1.7 #fff6b6ff
> select clear
> show #5 models
> hide #5 models
> show #5 models
> hide #5#!13#!7.1,4,7,10,13,16,19,22#!56.1-5#!57.1-5#!60.1.7 atoms
> show #5#!13#!7.1,4,7,10,13,16,19,22#!56.1-5#!57.1-5#!60.1.7 cartoons
> hide #!7 models
> hide #!13 models
> show #!13 models
> color #13 red
> hide #!56 models
> hide #!57 models
> select #5/I:215
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #5/F:202
12 atoms, 10 bonds, 2 residues, 1 model selected
> select add #5/n:209
21 atoms, 18 bonds, 3 residues, 1 model selected
> select add #5/f:220
33 atoms, 30 bonds, 4 residues, 1 model selected
> select add #5/0:220
45 atoms, 42 bonds, 5 residues, 1 model selected
> select add #5/Z:212
54 atoms, 50 bonds, 6 residues, 1 model selected
> select add #5/4:220
66 atoms, 62 bonds, 7 residues, 1 model selected
> select add #5/T:212
75 atoms, 70 bonds, 8 residues, 1 model selected
> select add #5/x:220
87 atoms, 82 bonds, 9 residues, 1 model selected
> select add #5/N:216
95 atoms, 89 bonds, 10 residues, 1 model selected
> select add #5/K:216
103 atoms, 96 bonds, 11 residues, 1 model selected
> hide #5 models
> select add #5
216018 atoms, 217305 bonds, 28314 residues, 1 model selected
> select subtract #5
Nothing selected
> hide #!60 models
> show #!60 models
> hide #!60 models
> show #60.1.1-3,6,12,15-32#!60.1.4-5,7-11,13-14,33 target m
> hide #60.1.1-3,6,12,15-32#!13#!60.1.4-5,7-11,13-14,33 surfaces
> show #60.1.1-3,6,12,15-32#!13#!60.1.4-5,7-11,13-14,33 cartoons
> hide #60.1.1-3,6,12,15-32#!13#!60.1.4-5,7-11,13-14,33 atoms
> show #!60.2 models
> hide
> #60.1.1-3,6,12,15-32#60.2.1-6,8-11,13-14,16-32#!13#!60.1.4-5,7-11,13-14,33#!60.2.7,12,15,33
> surfaces
> show
> #60.1.1-3,6,12,15-32#60.2.1-6,8-11,13-14,16-32#!13#!60.1.4-5,7-11,13-14,33#!60.2.7,12,15,33
> cartoons
> hide
> #60.1.1-3,6,12,15-32#60.2.1-6,8-11,13-14,16-32#!13#!60.1.4-5,7-11,13-14,33#!60.2.7,12,15,33
> atoms
> color #60.2 #ffdb8eff models
> select add #13
24002 atoms, 24145 bonds, 42023 pseudobonds, 3146 residues, 3 models selected
> show sel surfaces
> select clear
> select #60.1.31/f:213
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #60.2.28/c:220
21 atoms, 20 bonds, 2 residues, 2 models selected
> select add #60.1.25/Z:213
30 atoms, 28 bonds, 3 residues, 3 models selected
> select add #60.2.22/W:216
38 atoms, 35 bonds, 4 residues, 4 models selected
> select add #60.1.19/T:209
47 atoms, 43 bonds, 5 residues, 5 models selected
> select add #60.2.16/Q:216
55 atoms, 50 bonds, 6 residues, 6 models selected
> select add #60.1.13/N:202
62 atoms, 56 bonds, 7 residues, 7 models selected
> select add #60.1.10/K:212
71 atoms, 64 bonds, 8 residues, 9 models selected
> select add #60.1.8/I:205
80 atoms, 72 bonds, 9 residues, 11 models selected
> select add #60.1.5/F:209
89 atoms, 80 bonds, 10 residues, 13 models selected
> select add #60.2.6/G:209
98 atoms, 88 bonds, 11 residues, 15 models selected
> select add #60.1.5
2271 atoms, 2275 bonds, 296 residues, 15 models selected
> select add #60.1.8
4444 atoms, 4462 bonds, 581 residues, 15 models selected
> select add #60.1.10
6617 atoms, 6649 bonds, 866 residues, 15 models selected
> select add #60.1.13
8792 atoms, 8838 bonds, 1151 residues, 15 models selected
> select add #60.1.19
10965 atoms, 11025 bonds, 1436 residues, 15 models selected
> select add #60.1.25
13138 atoms, 13212 bonds, 1721 residues, 15 models selected
> select add #60.1.31
15311 atoms, 15399 bonds, 2006 residues, 15 models selected
> select add #60.2
87280 atoms, 87800 bonds, 11440 residues, 45 models selected
> select subtract #60.2
15274 atoms, 15365 bonds, 2002 residues, 15 models selected
> select add #60.2.6/G:213
15283 atoms, 15373 bonds, 2003 residues, 12 models selected
> select add #60.2.28/c:212
15292 atoms, 15381 bonds, 2004 residues, 13 models selected
> select add #60.2.22/W:213
15301 atoms, 15389 bonds, 2005 residues, 14 models selected
> select add #60.2.16/Q:209
15310 atoms, 15397 bonds, 2006 residues, 15 models selected
> select add #60.2.6
17483 atoms, 17584 bonds, 2291 residues, 15 models selected
> select add #60.2.16
19656 atoms, 19771 bonds, 2576 residues, 15 models selected
> select add #60.2.22
21829 atoms, 21958 bonds, 2861 residues, 15 models selected
> select add #60.2.28
24002 atoms, 24145 bonds, 3146 residues, 15 models selected
> hide #60.1.1-3#!60.1.4 target m
> hide #60.1.6#!60.1.7 target m
> hide #!60.1.9 models
> hide #60.1.12#!60.1.11 target m
> hide #60.1.15-18#!60.1.14 target m
> hide #60.1.20-24 target m
> hide #60.1.26-30 target m
> hide #60.1.32 models
> hide #!60.1.33 models
> hide #60.2.1-5 target m
> hide #60.2.8-11,13-14#!60.2.7,12,15 target m
> hide #60.2.17-21 target m
> hide #60.2.23-27 target m
> hide #60.2.29-32#!60.2.33 target m
> hide #!13 models
> hide #!21 models
> select clear
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
> layer-2.pdb displayedOnly true
> show #!13 models
> hide #!60 models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
> layer-1.pdb displayedOnly true
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
> layer-2.pdb
Summary of feedback from opening
/Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
layer-2.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 1 TYR A 223 ASP A 227 1 5
End residue of secondary structure not found: HELIX 17 17 GLN C 231 LYS C 233
1 3
Start residue of secondary structure not found: HELIX 18 18 TYR D 223 ASP D
227 1 5
Start residue of secondary structure not found: HELIX 19 19 PRO E 88 GLU E 90
1 3
Start residue of secondary structure not found: HELIX 20 20 TYR E 232 ASP E
235 1 4
Start residue of secondary structure not found: HELIX 21 21 TYR F 223 ASP F
227 1 5
Start residue of secondary structure not found: HELIX 24 24 VAL H 33 LEU H 51
1 19
8 messages similar to the above omitted
End residue of secondary structure not found: HELIX 33 33 SER H 176 LEU H 189
1 14
Start residue of secondary structure not found: HELIX 34 34 ALA H 190 THR H
192 1 3
Start residue of secondary structure not found: HELIX 35 35 LYS H 196 ASN H
208 1 13
End residue of secondary structure not found: HELIX 36 36 THR H 214 GLY H 230
1 17
End residue of secondary structure not found: HELIX 37 37 GLN H 231 LYS H 233
1 3
Start residue of secondary structure not found: HELIX 42 42 PRO L 88 GLU L 90
1 3
Start residue of secondary structure not found: HELIX 43 43 TYR L 232 ASP L
235 1 4
End residue of secondary structure not found: HELIX 57 57 GLN M 231 LYS M 233
1 3
Start residue of secondary structure not found: HELIX 61 61 TYR P 223 ASP P
227 1 5
Start residue of secondary structure not found: HELIX 62 62 PRO Q 88 GLU Q 90
1 3
Start residue of secondary structure not found: HELIX 63 63 TYR Q 232 ASP Q
235 1 4
Start residue of secondary structure not found: HELIX 64 64 VAL R 33 LEU R 51
1 19
Start residue of secondary structure not found: HELIX 65 65 ARG R 55 GLU R 70
1 16
22 messages similar to the above omitted
End residue of secondary structure not found: SHEET 8 8 1 THR A 147 TYR A 154
0
Start residue of secondary structure not found: SHEET 9 9 1 LYS A 158 THR A
166 0
Start residue of secondary structure not found: SHEET 10 10 1 THR A 185 THR A
193 0
Start residue of secondary structure not found: SHEET 11 11 1 PHE A 202 ASP A
207 0
Start residue of secondary structure not found: SHEET 12 12 1 PHE A 209 ASP A
214 0
Start residue of secondary structure not found: SHEET 13 13 1 ILE B 47 GLU B
53 0
1 messages similar to the above omitted
End residue of secondary structure not found: SHEET 15 15 1 GLY B 70 ASN B 78
0
Start residue of secondary structure not found: SHEET 20 20 1 ARG B 156 LYS B
163 0
Start residue of secondary structure not found: SHEET 21 21 1 TRP B 169 ALA B
175 0
Start residue of secondary structure not found: SHEET 25 25 1 TYR D 31 ASP D
37 0
Start residue of secondary structure not found: SHEET 26 26 1 ALA D 48 GLY D
53 0
Start residue of secondary structure not found: SHEET 27 27 1 LYS D 63 ASN D
68 0
28 messages similar to the above omitted
End residue of secondary structure not found: SHEET 56 56 1 THR F 147 TYR F
154 0
Start residue of secondary structure not found: SHEET 57 57 1 LYS F 158 THR F
166 0
Start residue of secondary structure not found: SHEET 58 58 1 THR F 185 THR F
193 0
Start residue of secondary structure not found: SHEET 59 59 1 PHE F 202 ASP F
207 0
Start residue of secondary structure not found: SHEET 60 60 1 PHE F 209 ASP F
214 0
Start residue of secondary structure not found: SHEET 61 61 1 ILE G 47 GLU G
53 0
1 messages similar to the above omitted
End residue of secondary structure not found: SHEET 63 63 1 GLY G 70 ASN G 78
0
Start residue of secondary structure not found: SHEET 68 68 1 ARG G 156 LYS G
163 0
Start residue of secondary structure not found: SHEET 69 69 1 TRP G 169 ALA G
175 0
Start residue of secondary structure not found: SHEET 73 73 1 TYR I 31 ASP I
37 0
End residue of secondary structure not found: SHEET 74 74 1 ALA I 48 GLY I 53
0
End residue of secondary structure not found: SHEET 75 75 1 LYS I 63 ASN I 68
0
End residue of secondary structure not found: SHEET 78 78 1 ASN I 119 ALA I
130 0
End residue of secondary structure not found: SHEET 80 80 1 THR I 147 TYR I
154 0
Start residue of secondary structure not found: SHEET 81 81 1 LYS I 158 THR I
166 0
Start residue of secondary structure not found: SHEET 85 85 1 ILE J 47 GLU J
53 0
Start residue of secondary structure not found: SHEET 86 86 1 TRP J 61 MET J
65 0
End residue of secondary structure not found: SHEET 87 87 1 GLY J 70 ASN J 78
0
Start residue of secondary structure not found: SHEET 92 92 1 ARG J 156 LYS J
163 0
Start residue of secondary structure not found: SHEET 93 93 1 TRP J 169 ALA J
175 0
Start residue of secondary structure not found: SHEET 97 97 1 TYR K 31 ASP K
37 0
End residue of secondary structure not found: SHEET 98 98 1 ALA K 48 GLY K 53
0
End residue of secondary structure not found: SHEET 99 99 1 LYS K 63 ASN K 68
0
End residue of secondary structure not found: SHEET 102 102 1 ASN K 119 ALA K
130 0
Start residue of secondary structure not found: SHEET 104 104 1 THR K 147 TYR
K 154 0
Start residue of secondary structure not found: SHEET 105 105 1 LYS K 158 THR
K 166 0
Start residue of secondary structure not found: SHEET 109 109 1 ILE L 47 GLU L
53 0
Start residue of secondary structure not found: SHEET 110 110 1 TRP L 61 MET L
65 0
Start residue of secondary structure not found: SHEET 111 111 1 GLY L 70 ASN L
78 0
10 messages similar to the above omitted
End residue of secondary structure not found: SHEET 122 122 1 ALA N 48 GLY N
53 0
End residue of secondary structure not found: SHEET 123 123 1 LYS N 63 ASN N
68 0
End residue of secondary structure not found: SHEET 126 126 1 ASN N 119 ALA N
130 0
Start residue of secondary structure not found: SHEET 128 128 1 THR N 147 TYR
N 154 0
Start residue of secondary structure not found: SHEET 133 133 1 ILE O 47 GLU O
53 0
Start residue of secondary structure not found: SHEET 134 134 1 TRP O 61 MET O
65 0
End residue of secondary structure not found: SHEET 135 135 1 GLY O 70 ASN O
78 0
Start residue of secondary structure not found: SHEET 140 140 1 ARG O 156 LYS
O 163 0
Start residue of secondary structure not found: SHEET 141 141 1 TRP O 169 ALA
O 175 0
Start residue of secondary structure not found: SHEET 145 145 1 TYR P 31 ASP P
37 0
Start residue of secondary structure not found: SHEET 146 146 1 ALA P 48 GLY P
53 0
Start residue of secondary structure not found: SHEET 147 147 1 LYS P 63 ASN P
68 0
29 messages similar to the above omitted
End residue of secondary structure not found: SHEET 177 177 1 LYS S 158 THR S
166 0
Start residue of secondary structure not found: SHEET 178 178 1 THR S 185 THR
S 193 0
Start residue of secondary structure not found: SHEET 179 179 1 PHE S 202 ASP
S 207 0
Start residue of secondary structure not found: SHEET 180 180 1 PHE S 209 ASP
S 214 0
Start residue of secondary structure not found: SHEET 181 181 1 ILE T 47 GLU T
53 0
Start residue of secondary structure not found: SHEET 182 182 1 TRP T 61 MET T
65 0
97 messages similar to the above omitted
End residue of secondary structure not found: SHEET 8 8 1 THR A 147 TYR A 154
0
Start residue of secondary structure not found: SHEET 9 9 1 LYS A 158 THR A
166 0
Start residue of secondary structure not found: SHEET 10 10 1 THR A 185 THR A
193 0
Start residue of secondary structure not found: SHEET 11 11 1 PHE A 202 ASP A
207 0
Start residue of secondary structure not found: SHEET 12 12 1 PHE A 209 ASP A
214 0
Start residue of secondary structure not found: SHEET 13 13 1 ILE B 47 GLU B
53 0
271 messages similar to the above omitted
End residue of secondary structure not found: SHEET 15 15 1 GLY B 70 ASN B 78
0
Start residue of secondary structure not found: SHEET 20 20 1 ARG B 156 LYS B
163 0
Start residue of secondary structure not found: SHEET 21 21 1 TRP B 169 ALA B
175 0
Start residue of secondary structure not found: SHEET 25 25 1 TYR D 31 ASP D
37 0
Start residue of secondary structure not found: SHEET 26 26 1 ALA D 48 GLY D
53 0
Start residue of secondary structure not found: SHEET 27 27 1 LYS D 63 ASN D
68 0
517 messages similar to the above omitted
End residue of secondary structure not found: SHEET 2 2 1 ALA A 48 GLY A 53 0
End residue of secondary structure not found: SHEET 3 3 1 LYS A 63 ASN A 68 0
End residue of secondary structure not found: SHEET 6 6 1 ASN A 119 ALA A 130
0
Start residue of secondary structure not found: SHEET 8 8 1 THR A 147 TYR A
154 0
Start residue of secondary structure not found: SHEET 9 9 1 LYS A 158 THR A
166 0
Start residue of secondary structure not found: SHEET 13 13 1 ILE B 47 GLU B
53 0
Start residue of secondary structure not found: SHEET 14 14 1 TRP B 61 MET B
65 0
Start residue of secondary structure not found: SHEET 15 15 1 GLY B 70 ASN B
78 0
269 messages similar to the above omitted
End residue of secondary structure not found: SHEET 15 15 1 GLY B 70 ASN B 78
0
Start residue of secondary structure not found: SHEET 20 20 1 ARG B 156 LYS B
163 0
Start residue of secondary structure not found: SHEET 21 21 1 TRP B 169 ALA B
175 0
Start residue of secondary structure not found: SHEET 25 25 1 TYR D 31 ASP D
37 0
Start residue of secondary structure not found: SHEET 26 26 1 ALA D 48 GLY D
53 0
Start residue of secondary structure not found: SHEET 27 27 1 LYS D 63 ASN D
68 0
2944 messages similar to the above omitted
End residue of secondary structure not found: HELIX 60 60 TYR O 232 ASP O 235
1 4
Start residue of secondary structure not found: HELIX 61 61 TYR P 223 ASP P
227 1 5
Start residue of secondary structure not found: HELIX 62 62 PRO Q 88 GLU Q 90
1 3
Start residue of secondary structure not found: HELIX 63 63 TYR Q 232 ASP Q
235 1 4
Start residue of secondary structure not found: HELIX 64 64 VAL R 33 LEU R 51
1 19
Start residue of secondary structure not found: HELIX 65 65 ARG R 55 GLU R 70
1 16
1014 messages similar to the above omitted
End residue of secondary structure not found: SHEET 184 184 1 LYS T 99 PHE T
107 0
Start residue of secondary structure not found: SHEET 185 185 1 SER T 114 ALA
T 119 0
Start residue of secondary structure not found: SHEET 186 186 1 ILE T 128 VAL
T 137 0
Start residue of secondary structure not found: SHEET 187 187 1 THR T 144 GLU
T 150 0
Start residue of secondary structure not found: SHEET 188 188 1 ARG T 156 LYS
T 163 0
Start residue of secondary structure not found: SHEET 189 189 1 TRP T 169 ALA
T 175 0
5011 messages similar to the above omitted
End residue of secondary structure not found: SHEET 33 33 1 LYS D 158 THR D
166 0
Start residue of secondary structure not found: SHEET 34 34 1 THR D 185 THR D
193 0
Start residue of secondary structure not found: SHEET 35 35 1 PHE D 202 ASP D
207 0
Start residue of secondary structure not found: SHEET 36 36 1 PHE D 209 ASP D
214 0
Start residue of secondary structure not found: SHEET 37 37 1 ILE E 47 GLU E
53 0
Start residue of secondary structure not found: SHEET 38 38 1 TRP E 61 MET E
65 0
2060 messages similar to the above omitted
End residue of secondary structure not found: HELIX 3 3 TYR B 232 ASP B 235 1
4
Start residue of secondary structure not found: HELIX 4 4 VAL C 33 LEU C 51 1
19
Start residue of secondary structure not found: HELIX 5 5 ARG C 55 GLU C 70 1
16
Start residue of secondary structure not found: HELIX 6 6 PRO C 76 SER C 84 1
9
Start residue of secondary structure not found: HELIX 7 7 LEU C 85 THR C 87 1
3
Start residue of secondary structure not found: HELIX 8 8 PRO C 105 VAL C 118
1 14
51 messages similar to the above omitted
End residue of secondary structure not found: HELIX 60 60 TYR O 232 ASP O 235
1 4
Start residue of secondary structure not found: HELIX 61 61 TYR P 223 ASP P
227 1 5
Start residue of secondary structure not found: HELIX 62 62 PRO Q 88 GLU Q 90
1 3
Start residue of secondary structure not found: HELIX 63 63 TYR Q 232 ASP Q
235 1 4
Start residue of secondary structure not found: HELIX 64 64 VAL R 33 LEU R 51
1 19
Start residue of secondary structure not found: HELIX 65 65 ARG R 55 GLU R 70
1 16
30 messages similar to the above omitted
End residue of secondary structure not found: SHEET 16 16 1 LYS B 99 PHE B 107
0
Start residue of secondary structure not found: SHEET 17 17 1 SER B 114 ALA B
119 0
Start residue of secondary structure not found: SHEET 18 18 1 ILE B 128 VAL B
137 0
Start residue of secondary structure not found: SHEET 19 19 1 THR B 144 GLU B
150 0
Start residue of secondary structure not found: SHEET 20 20 1 ARG B 156 LYS B
163 0
Start residue of secondary structure not found: SHEET 21 21 1 TRP B 169 ALA B
175 0
2 messages similar to the above omitted
End residue of secondary structure not found: SHEET 24 24 1 LEU B 225 ASP B
230 0
Start residue of secondary structure not found: SHEET 25 25 1 TYR D 31 ASP D
37 0
Start residue of secondary structure not found: SHEET 26 26 1 ALA D 48 GLY D
53 0
Start residue of secondary structure not found: SHEET 27 27 1 LYS D 63 ASN D
68 0
Start residue of secondary structure not found: SHEET 28 28 1 LYS D 85 PHE D
91 0
Start residue of secondary structure not found: SHEET 29 29 1 TRP D 100 THR D
106 0
58 messages similar to the above omitted
End residue of secondary structure not found: SHEET 88 88 1 LYS J 99 PHE J 107
0
Start residue of secondary structure not found: SHEET 89 89 1 SER J 114 ALA J
119 0
Start residue of secondary structure not found: SHEET 90 90 1 ILE J 128 VAL J
137 0
Start residue of secondary structure not found: SHEET 91 91 1 THR J 144 GLU J
150 0
Start residue of secondary structure not found: SHEET 92 92 1 ARG J 156 LYS J
163 0
Start residue of secondary structure not found: SHEET 93 93 1 TRP J 169 ALA J
175 0
2 messages similar to the above omitted
End residue of secondary structure not found: SHEET 96 96 1 LEU J 225 ASP J
230 0
Start residue of secondary structure not found: SHEET 97 97 1 TYR K 31 ASP K
37 0
Start residue of secondary structure not found: SHEET 98 98 1 ALA K 48 GLY K
53 0
Start residue of secondary structure not found: SHEET 99 99 1 LYS K 63 ASN K
68 0
Start residue of secondary structure not found: SHEET 100 100 1 LYS K 85 PHE K
91 0
Start residue of secondary structure not found: SHEET 101 101 1 TRP K 100 THR
K 106 0
34 messages similar to the above omitted
End residue of secondary structure not found: SHEET 136 136 1 LYS O 99 PHE O
107 0
Start residue of secondary structure not found: SHEET 137 137 1 SER O 114 ALA
O 119 0
Start residue of secondary structure not found: SHEET 138 138 1 ILE O 128 VAL
O 137 0
Start residue of secondary structure not found: SHEET 139 139 1 THR O 144 GLU
O 150 0
Start residue of secondary structure not found: SHEET 140 140 1 ARG O 156 LYS
O 163 0
Start residue of secondary structure not found: SHEET 141 141 1 TRP O 169 ALA
O 175 0
2 messages similar to the above omitted
End residue of secondary structure not found: SHEET 144 144 1 LEU O 225 ASP O
230 0
Start residue of secondary structure not found: SHEET 145 145 1 TYR P 31 ASP P
37 0
Start residue of secondary structure not found: SHEET 146 146 1 ALA P 48 GLY P
53 0
Start residue of secondary structure not found: SHEET 147 147 1 LYS P 63 ASN P
68 0
Start residue of secondary structure not found: SHEET 148 148 1 LYS P 85 PHE P
91 0
Start residue of secondary structure not found: SHEET 149 149 1 TRP P 100 THR
P 106 0
43 messages similar to the above omitted
Chain information for FlaB1_core_one-layer-2.pdb
---
Chain | Description
22.1/A 22.1/D 22.1/F 22.1/I 22.1/K 22.1/N 22.1/S | No description available
22.2/A | No description available
22.4/A | No description available
22.5/A | No description available
22.7/A | No description available
22.46/A | No description available
22.47/A | No description available
22.1/B 22.1/E 22.1/G 22.1/J 22.1/L 22.1/O 22.1/T | No description available
22.3/B | No description available
22.6/B | No description available
22.8/B | No description available
22.32/B | No description available
22.42/B | No description available
22.46/B | No description available
22.47/B | No description available
22.1/C 22.1/H 22.1/M 22.1/R | No description available
22.33/C | No description available
22.38/C | No description available
22.47/C | No description available
22.9/D | No description available
22.34/D | No description available
22.39/D | No description available
22.46/D | No description available
22.47/D | No description available
22.10/E | No description available
22.35/E | No description available
22.40/E | No description available
22.46/E 22.47/E 22.47/N 22.46/Z 22.46/f | No description available
22.11/F | No description available
22.47/F | No description available
22.12/H | No description available
22.46/H | No description available
22.47/H | No description available
22.47/I 22.46/T | No description available
22.14/J | No description available
22.47/J | No description available
22.41/K | No description available
22.15/M | No description available
22.47/M | No description available
22.16/N | No description available
22.17/O | No description available
22.47/O | No description available
22.18/Q | No description available
22.46/Q | No description available
22.47/Q 22.46/W | No description available
22.43/R 22.46/R 22.47/g | No description available
22.19/S | No description available
22.46/S | No description available
22.47/S | No description available
22.20/T | No description available
22.47/T | No description available
22.21/U | No description available
22.22/V | No description available
22.46/V | No description available
22.47/V | No description available
22.23/W | No description available
22.47/W | No description available
22.24/X | No description available
22.47/X | No description available
22.25/Y | No description available
22.46/Y | No description available
22.47/Y | No description available
22.26/Z | No description available
22.47/Z | No description available
22.27/a | No description available
22.47/a | No description available
22.28/b | No description available
22.46/b | No description available
22.47/b | No description available
22.29/c | No description available
22.46/c | No description available
22.47/c | No description available
22.47/d | No description available
22.30/e | No description available
22.46/e | No description available
22.47/e | No description available
22.31/f | No description available
22.47/f | No description available
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
> layer-1.pdb
Summary of feedback from opening
/Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
layer-1.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 1 TYR A 223 ASP A 227 1 5
End residue of secondary structure not found: HELIX 17 17 GLN C 231 LYS C 233
1 3
Start residue of secondary structure not found: HELIX 18 18 TYR D 223 ASP D
227 1 5
Start residue of secondary structure not found: HELIX 19 19 PRO E 88 GLU E 90
1 3
Start residue of secondary structure not found: HELIX 20 20 TYR E 232 ASP E
235 1 4
Start residue of secondary structure not found: HELIX 21 21 TYR F 223 ASP F
227 1 5
Start residue of secondary structure not found: HELIX 24 24 VAL H 33 LEU H 51
1 19
8 messages similar to the above omitted
End residue of secondary structure not found: HELIX 33 33 SER H 176 LEU H 189
1 14
Start residue of secondary structure not found: HELIX 34 34 ALA H 190 THR H
192 1 3
Start residue of secondary structure not found: HELIX 35 35 LYS H 196 ASN H
208 1 13
End residue of secondary structure not found: HELIX 36 36 THR H 214 GLY H 230
1 17
End residue of secondary structure not found: HELIX 37 37 GLN H 231 LYS H 233
1 3
Start residue of secondary structure not found: HELIX 42 42 PRO L 88 GLU L 90
1 3
Start residue of secondary structure not found: HELIX 43 43 TYR L 232 ASP L
235 1 4
End residue of secondary structure not found: HELIX 57 57 GLN M 231 LYS M 233
1 3
Start residue of secondary structure not found: HELIX 61 61 TYR P 223 ASP P
227 1 5
Start residue of secondary structure not found: HELIX 62 62 PRO Q 88 GLU Q 90
1 3
Start residue of secondary structure not found: HELIX 63 63 TYR Q 232 ASP Q
235 1 4
Start residue of secondary structure not found: HELIX 64 64 VAL R 33 LEU R 51
1 19
Start residue of secondary structure not found: HELIX 65 65 ARG R 55 GLU R 70
1 16
22 messages similar to the above omitted
End residue of secondary structure not found: SHEET 8 8 1 THR A 147 TYR A 154
0
Start residue of secondary structure not found: SHEET 9 9 1 LYS A 158 THR A
166 0
Start residue of secondary structure not found: SHEET 10 10 1 THR A 185 THR A
193 0
Start residue of secondary structure not found: SHEET 11 11 1 PHE A 202 ASP A
207 0
Start residue of secondary structure not found: SHEET 12 12 1 PHE A 209 ASP A
214 0
Start residue of secondary structure not found: SHEET 13 13 1 ILE B 47 GLU B
53 0
1 messages similar to the above omitted
End residue of secondary structure not found: SHEET 15 15 1 GLY B 70 ASN B 78
0
Start residue of secondary structure not found: SHEET 20 20 1 ARG B 156 LYS B
163 0
Start residue of secondary structure not found: SHEET 21 21 1 TRP B 169 ALA B
175 0
Start residue of secondary structure not found: SHEET 25 25 1 TYR D 31 ASP D
37 0
Start residue of secondary structure not found: SHEET 26 26 1 ALA D 48 GLY D
53 0
Start residue of secondary structure not found: SHEET 27 27 1 LYS D 63 ASN D
68 0
28 messages similar to the above omitted
End residue of secondary structure not found: SHEET 56 56 1 THR F 147 TYR F
154 0
Start residue of secondary structure not found: SHEET 57 57 1 LYS F 158 THR F
166 0
Start residue of secondary structure not found: SHEET 58 58 1 THR F 185 THR F
193 0
Start residue of secondary structure not found: SHEET 59 59 1 PHE F 202 ASP F
207 0
Start residue of secondary structure not found: SHEET 60 60 1 PHE F 209 ASP F
214 0
Start residue of secondary structure not found: SHEET 61 61 1 ILE G 47 GLU G
53 0
1 messages similar to the above omitted
End residue of secondary structure not found: SHEET 63 63 1 GLY G 70 ASN G 78
0
Start residue of secondary structure not found: SHEET 68 68 1 ARG G 156 LYS G
163 0
Start residue of secondary structure not found: SHEET 69 69 1 TRP G 169 ALA G
175 0
Start residue of secondary structure not found: SHEET 73 73 1 TYR I 31 ASP I
37 0
End residue of secondary structure not found: SHEET 74 74 1 ALA I 48 GLY I 53
0
End residue of secondary structure not found: SHEET 75 75 1 LYS I 63 ASN I 68
0
End residue of secondary structure not found: SHEET 78 78 1 ASN I 119 ALA I
130 0
End residue of secondary structure not found: SHEET 80 80 1 THR I 147 TYR I
154 0
Start residue of secondary structure not found: SHEET 81 81 1 LYS I 158 THR I
166 0
Start residue of secondary structure not found: SHEET 85 85 1 ILE J 47 GLU J
53 0
Start residue of secondary structure not found: SHEET 86 86 1 TRP J 61 MET J
65 0
End residue of secondary structure not found: SHEET 87 87 1 GLY J 70 ASN J 78
0
Start residue of secondary structure not found: SHEET 92 92 1 ARG J 156 LYS J
163 0
Start residue of secondary structure not found: SHEET 93 93 1 TRP J 169 ALA J
175 0
Start residue of secondary structure not found: SHEET 97 97 1 TYR K 31 ASP K
37 0
End residue of secondary structure not found: SHEET 98 98 1 ALA K 48 GLY K 53
0
End residue of secondary structure not found: SHEET 99 99 1 LYS K 63 ASN K 68
0
End residue of secondary structure not found: SHEET 102 102 1 ASN K 119 ALA K
130 0
Start residue of secondary structure not found: SHEET 104 104 1 THR K 147 TYR
K 154 0
Start residue of secondary structure not found: SHEET 105 105 1 LYS K 158 THR
K 166 0
Start residue of secondary structure not found: SHEET 109 109 1 ILE L 47 GLU L
53 0
Start residue of secondary structure not found: SHEET 110 110 1 TRP L 61 MET L
65 0
Start residue of secondary structure not found: SHEET 111 111 1 GLY L 70 ASN L
78 0
10 messages similar to the above omitted
End residue of secondary structure not found: SHEET 122 122 1 ALA N 48 GLY N
53 0
End residue of secondary structure not found: SHEET 123 123 1 LYS N 63 ASN N
68 0
End residue of secondary structure not found: SHEET 126 126 1 ASN N 119 ALA N
130 0
Start residue of secondary structure not found: SHEET 128 128 1 THR N 147 TYR
N 154 0
Start residue of secondary structure not found: SHEET 133 133 1 ILE O 47 GLU O
53 0
Start residue of secondary structure not found: SHEET 134 134 1 TRP O 61 MET O
65 0
End residue of secondary structure not found: SHEET 135 135 1 GLY O 70 ASN O
78 0
Start residue of secondary structure not found: SHEET 140 140 1 ARG O 156 LYS
O 163 0
Start residue of secondary structure not found: SHEET 141 141 1 TRP O 169 ALA
O 175 0
Start residue of secondary structure not found: SHEET 145 145 1 TYR P 31 ASP P
37 0
Start residue of secondary structure not found: SHEET 146 146 1 ALA P 48 GLY P
53 0
Start residue of secondary structure not found: SHEET 147 147 1 LYS P 63 ASN P
68 0
29 messages similar to the above omitted
End residue of secondary structure not found: SHEET 177 177 1 LYS S 158 THR S
166 0
Start residue of secondary structure not found: SHEET 178 178 1 THR S 185 THR
S 193 0
Start residue of secondary structure not found: SHEET 179 179 1 PHE S 202 ASP
S 207 0
Start residue of secondary structure not found: SHEET 180 180 1 PHE S 209 ASP
S 214 0
Start residue of secondary structure not found: SHEET 181 181 1 ILE T 47 GLU T
53 0
Start residue of secondary structure not found: SHEET 182 182 1 TRP T 61 MET T
65 0
97 messages similar to the above omitted
End residue of secondary structure not found: SHEET 8 8 1 THR A 147 TYR A 154
0
Start residue of secondary structure not found: SHEET 9 9 1 LYS A 158 THR A
166 0
Start residue of secondary structure not found: SHEET 10 10 1 THR A 185 THR A
193 0
Start residue of secondary structure not found: SHEET 11 11 1 PHE A 202 ASP A
207 0
Start residue of secondary structure not found: SHEET 12 12 1 PHE A 209 ASP A
214 0
Start residue of secondary structure not found: SHEET 13 13 1 ILE B 47 GLU B
53 0
271 messages similar to the above omitted
End residue of secondary structure not found: SHEET 15 15 1 GLY B 70 ASN B 78
0
Start residue of secondary structure not found: SHEET 20 20 1 ARG B 156 LYS B
163 0
Start residue of secondary structure not found: SHEET 21 21 1 TRP B 169 ALA B
175 0
Start residue of secondary structure not found: SHEET 25 25 1 TYR D 31 ASP D
37 0
Start residue of secondary structure not found: SHEET 26 26 1 ALA D 48 GLY D
53 0
Start residue of secondary structure not found: SHEET 27 27 1 LYS D 63 ASN D
68 0
517 messages similar to the above omitted
End residue of secondary structure not found: SHEET 2 2 1 ALA A 48 GLY A 53 0
End residue of secondary structure not found: SHEET 3 3 1 LYS A 63 ASN A 68 0
End residue of secondary structure not found: SHEET 6 6 1 ASN A 119 ALA A 130
0
Start residue of secondary structure not found: SHEET 8 8 1 THR A 147 TYR A
154 0
Start residue of secondary structure not found: SHEET 9 9 1 LYS A 158 THR A
166 0
Start residue of secondary structure not found: SHEET 13 13 1 ILE B 47 GLU B
53 0
Start residue of secondary structure not found: SHEET 14 14 1 TRP B 61 MET B
65 0
Start residue of secondary structure not found: SHEET 15 15 1 GLY B 70 ASN B
78 0
269 messages similar to the above omitted
End residue of secondary structure not found: SHEET 15 15 1 GLY B 70 ASN B 78
0
Start residue of secondary structure not found: SHEET 20 20 1 ARG B 156 LYS B
163 0
Start residue of secondary structure not found: SHEET 21 21 1 TRP B 169 ALA B
175 0
Start residue of secondary structure not found: SHEET 25 25 1 TYR D 31 ASP D
37 0
Start residue of secondary structure not found: SHEET 26 26 1 ALA D 48 GLY D
53 0
Start residue of secondary structure not found: SHEET 27 27 1 LYS D 63 ASN D
68 0
2944 messages similar to the above omitted
End residue of secondary structure not found: HELIX 60 60 TYR O 232 ASP O 235
1 4
Start residue of secondary structure not found: HELIX 61 61 TYR P 223 ASP P
227 1 5
Start residue of secondary structure not found: HELIX 62 62 PRO Q 88 GLU Q 90
1 3
Start residue of secondary structure not found: HELIX 63 63 TYR Q 232 ASP Q
235 1 4
Start residue of secondary structure not found: HELIX 64 64 VAL R 33 LEU R 51
1 19
Start residue of secondary structure not found: HELIX 65 65 ARG R 55 GLU R 70
1 16
1014 messages similar to the above omitted
End residue of secondary structure not found: SHEET 184 184 1 LYS T 99 PHE T
107 0
Start residue of secondary structure not found: SHEET 185 185 1 SER T 114 ALA
T 119 0
Start residue of secondary structure not found: SHEET 186 186 1 ILE T 128 VAL
T 137 0
Start residue of secondary structure not found: SHEET 187 187 1 THR T 144 GLU
T 150 0
Start residue of secondary structure not found: SHEET 188 188 1 ARG T 156 LYS
T 163 0
Start residue of secondary structure not found: SHEET 189 189 1 TRP T 169 ALA
T 175 0
5011 messages similar to the above omitted
End residue of secondary structure not found: SHEET 33 33 1 LYS D 158 THR D
166 0
Start residue of secondary structure not found: SHEET 34 34 1 THR D 185 THR D
193 0
Start residue of secondary structure not found: SHEET 35 35 1 PHE D 202 ASP D
207 0
Start residue of secondary structure not found: SHEET 36 36 1 PHE D 209 ASP D
214 0
Start residue of secondary structure not found: SHEET 37 37 1 ILE E 47 GLU E
53 0
Start residue of secondary structure not found: SHEET 38 38 1 TRP E 61 MET E
65 0
2060 messages similar to the above omitted
End residue of secondary structure not found: HELIX 3 3 TYR B 232 ASP B 235 1
4
Start residue of secondary structure not found: HELIX 4 4 VAL C 33 LEU C 51 1
19
Start residue of secondary structure not found: HELIX 5 5 ARG C 55 GLU C 70 1
16
Start residue of secondary structure not found: HELIX 6 6 PRO C 76 SER C 84 1
9
Start residue of secondary structure not found: HELIX 7 7 LEU C 85 THR C 87 1
3
Start residue of secondary structure not found: HELIX 8 8 PRO C 105 VAL C 118
1 14
51 messages similar to the above omitted
End residue of secondary structure not found: HELIX 60 60 TYR O 232 ASP O 235
1 4
Start residue of secondary structure not found: HELIX 61 61 TYR P 223 ASP P
227 1 5
Start residue of secondary structure not found: HELIX 62 62 PRO Q 88 GLU Q 90
1 3
Start residue of secondary structure not found: HELIX 63 63 TYR Q 232 ASP Q
235 1 4
Start residue of secondary structure not found: HELIX 64 64 VAL R 33 LEU R 51
1 19
Start residue of secondary structure not found: HELIX 65 65 ARG R 55 GLU R 70
1 16
30 messages similar to the above omitted
End residue of secondary structure not found: SHEET 16 16 1 LYS B 99 PHE B 107
0
Start residue of secondary structure not found: SHEET 17 17 1 SER B 114 ALA B
119 0
Start residue of secondary structure not found: SHEET 18 18 1 ILE B 128 VAL B
137 0
Start residue of secondary structure not found: SHEET 19 19 1 THR B 144 GLU B
150 0
Start residue of secondary structure not found: SHEET 20 20 1 ARG B 156 LYS B
163 0
Start residue of secondary structure not found: SHEET 21 21 1 TRP B 169 ALA B
175 0
2 messages similar to the above omitted
End residue of secondary structure not found: SHEET 24 24 1 LEU B 225 ASP B
230 0
Start residue of secondary structure not found: SHEET 25 25 1 TYR D 31 ASP D
37 0
Start residue of secondary structure not found: SHEET 26 26 1 ALA D 48 GLY D
53 0
Start residue of secondary structure not found: SHEET 27 27 1 LYS D 63 ASN D
68 0
Start residue of secondary structure not found: SHEET 28 28 1 LYS D 85 PHE D
91 0
Start residue of secondary structure not found: SHEET 29 29 1 TRP D 100 THR D
106 0
58 messages similar to the above omitted
End residue of secondary structure not found: SHEET 88 88 1 LYS J 99 PHE J 107
0
Start residue of secondary structure not found: SHEET 89 89 1 SER J 114 ALA J
119 0
Start residue of secondary structure not found: SHEET 90 90 1 ILE J 128 VAL J
137 0
Start residue of secondary structure not found: SHEET 91 91 1 THR J 144 GLU J
150 0
Start residue of secondary structure not found: SHEET 92 92 1 ARG J 156 LYS J
163 0
Start residue of secondary structure not found: SHEET 93 93 1 TRP J 169 ALA J
175 0
2 messages similar to the above omitted
End residue of secondary structure not found: SHEET 96 96 1 LEU J 225 ASP J
230 0
Start residue of secondary structure not found: SHEET 97 97 1 TYR K 31 ASP K
37 0
Start residue of secondary structure not found: SHEET 98 98 1 ALA K 48 GLY K
53 0
Start residue of secondary structure not found: SHEET 99 99 1 LYS K 63 ASN K
68 0
Start residue of secondary structure not found: SHEET 100 100 1 LYS K 85 PHE K
91 0
Start residue of secondary structure not found: SHEET 101 101 1 TRP K 100 THR
K 106 0
34 messages similar to the above omitted
End residue of secondary structure not found: SHEET 136 136 1 LYS O 99 PHE O
107 0
Start residue of secondary structure not found: SHEET 137 137 1 SER O 114 ALA
O 119 0
Start residue of secondary structure not found: SHEET 138 138 1 ILE O 128 VAL
O 137 0
Start residue of secondary structure not found: SHEET 139 139 1 THR O 144 GLU
O 150 0
Start residue of secondary structure not found: SHEET 140 140 1 ARG O 156 LYS
O 163 0
Start residue of secondary structure not found: SHEET 141 141 1 TRP O 169 ALA
O 175 0
2 messages similar to the above omitted
End residue of secondary structure not found: SHEET 144 144 1 LEU O 225 ASP O
230 0
Start residue of secondary structure not found: SHEET 145 145 1 TYR P 31 ASP P
37 0
Start residue of secondary structure not found: SHEET 146 146 1 ALA P 48 GLY P
53 0
Start residue of secondary structure not found: SHEET 147 147 1 LYS P 63 ASN P
68 0
Start residue of secondary structure not found: SHEET 148 148 1 LYS P 85 PHE P
91 0
Start residue of secondary structure not found: SHEET 149 149 1 TRP P 100 THR
P 106 0
43 messages similar to the above omitted
Chain information for FlaB1_core_one-layer-1.pdb
---
Chain | Description
23.1/A 23.1/D 23.1/F 23.1/I 23.1/K 23.1/N 23.1/S | No description available
23.2/A | No description available
23.4/A | No description available
23.5/A | No description available
23.7/A | No description available
23.46/A | No description available
23.47/A | No description available
23.1/B 23.1/E 23.1/G 23.1/J 23.1/L 23.1/O 23.1/T | No description available
23.3/B | No description available
23.6/B | No description available
23.8/B | No description available
23.32/B | No description available
23.42/B | No description available
23.46/B | No description available
23.47/B | No description available
23.1/C 23.1/H 23.1/M 23.1/R | No description available
23.33/C | No description available
23.38/C | No description available
23.47/C | No description available
23.9/D | No description available
23.34/D | No description available
23.39/D | No description available
23.46/D | No description available
23.47/D | No description available
23.10/E | No description available
23.35/E | No description available
23.40/E | No description available
23.46/E 23.47/E 23.47/N 23.46/Z 23.46/f | No description available
23.11/F | No description available
23.47/F | No description available
23.12/H | No description available
23.46/H | No description available
23.47/H | No description available
23.47/I 23.46/T | No description available
23.14/J | No description available
23.47/J | No description available
23.41/K | No description available
23.15/M | No description available
23.47/M | No description available
23.16/N | No description available
23.17/O | No description available
23.47/O | No description available
23.18/Q | No description available
23.46/Q | No description available
23.47/Q 23.46/W | No description available
23.43/R 23.46/R 23.47/g | No description available
23.19/S | No description available
23.46/S | No description available
23.47/S | No description available
23.20/T | No description available
23.47/T | No description available
23.21/U | No description available
23.22/V | No description available
23.46/V | No description available
23.47/V | No description available
23.23/W | No description available
23.47/W | No description available
23.24/X | No description available
23.47/X | No description available
23.25/Y | No description available
23.46/Y | No description available
23.47/Y | No description available
23.26/Z | No description available
23.47/Z | No description available
23.27/a | No description available
23.47/a | No description available
23.28/b | No description available
23.46/b | No description available
23.47/b | No description available
23.29/c | No description available
23.46/c | No description available
23.47/c | No description available
23.47/d | No description available
23.30/e | No description available
23.46/e | No description available
23.47/e | No description available
23.31/f | No description available
23.47/f | No description available
Computing secondary structure
> hide
> #22.13,36-37,44-45#23.13,36-37,44-45#!13#!22.1-12,14-35,38-43,46-47#!23.1-12,14-35,38-43,46-47
> atoms
> hide #!22 models
> show #!22 models
> hide #!13 models
> hide #!22 models
> show #!22 models
> hide #!23 models
> show #!23 models
> close #23
> close #22
> show #!60 models
> select add #60.1.5
2182 atoms, 2195 bonds, 286 residues, 1 model selected
> select add #60.1.8
4364 atoms, 4390 bonds, 572 residues, 3 models selected
> select add #60.1.10
6546 atoms, 6585 bonds, 858 residues, 5 models selected
> select add #60.1.13
8728 atoms, 8780 bonds, 1144 residues, 7 models selected
> select add #60.1.19
10910 atoms, 10975 bonds, 1430 residues, 9 models selected
> select add #60.1.25
13092 atoms, 13170 bonds, 1716 residues, 10 models selected
> select add #60.1.31
15274 atoms, 15365 bonds, 2002 residues, 11 models selected
> select add #60.2.6
17456 atoms, 17560 bonds, 2288 residues, 12 models selected
> select add #60.2.16
19638 atoms, 19755 bonds, 2574 residues, 13 models selected
> select add #60.2.22
21820 atoms, 21950 bonds, 2860 residues, 14 models selected
> select add #60.2.28
24002 atoms, 24145 bonds, 3146 residues, 15 models selected
> combine sel
> combine #13
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
> layer-2.pdb models #22
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
> layer-1.pdb models #23
> rename #15-17 id #17
> rename #14 id #15
> hide #23 models
> rename #22 id #14
> color #13 #fff6b6ff
> rename #14 core_one_layer_2
> color #14 #fff6b6ff
> split #14
Split core_one_layer_2 (#14) into 11 models
Chain information for core_one_layer_2 F #14.1
---
Chain | Description
F | No description available
Chain information for core_one_layer_2 G #14.2
---
Chain | Description
G | No description available
Chain information for core_one_layer_2 I #14.3
---
Chain | Description
I | No description available
Chain information for core_one_layer_2 K #14.4
---
Chain | Description
K | No description available
Chain information for core_one_layer_2 N #14.5
---
Chain | Description
N | No description available
Chain information for core_one_layer_2 Q #14.6
---
Chain | Description
Q | No description available
Chain information for core_one_layer_2 T #14.7
---
Chain | Description
T | No description available
Chain information for core_one_layer_2 W #14.8
---
Chain | Description
W | No description available
Chain information for core_one_layer_2 Z #14.9
---
Chain | Description
Z | No description available
Chain information for core_one_layer_2 c #14.10
---
Chain | Description
c | No description available
Chain information for core_one_layer_2 f #14.11
---
Chain | Description
f | No description available
> close #23
> show #!13 models
> hide sel surfaces
> select clear
> hide #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!13#!60.1.5,8,10,13 surfaces
> show #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!13#!60.1.5,8,10,13 cartoons
> hide #!17 models
> color #14 #fff6b6ff models
> show #!56 models
> show #!55 models
> hide #!56 models
> hide #!55 models
> show #!56 models
> show #!55 models
> interfaces
> #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!13#!55.1-5#!56.1-5#!60.1.5,8,10,13 &
> ~solvent
129 buried areas: #60.2.28/c #14.10/c 10945, #60.2.22/W #14.8/W 10878,
#60.2.16/Q #14.6/Q 10686, #14.2/G #60.2.6/G 10593, #60.1.31/f #14.11/f 8486,
#14.1/F #60.1.5/F 8453, #14.9/Z #60.1.25/Z 8453, #60.1.19/T #14.7/T 8451,
#60.1.10/K #14.4/K 8448, #60.1.8/I #14.3/I 8441, #14.5/N #60.1.13/N 8420,
#60.1.31/f #13/H 2051, #14.11/f #13/H 2051, #14.1/F #13/b 2039, #13/b
#60.1.5/F 2039, #13/1 #60.1.25/Z 2037, #14.9/Z #13/1 2037, #14.6/Q #13/q 2013,
#60.2.16/Q #13/q 2013, #13/i #60.1.8/I 2012, #13/i #14.3/I 2012, #60.1.19/T
#13/u 2008, #14.7/T #13/u 2008, #14.4/K #13/k 2000, #60.1.10/K #13/k 2000,
#14.5/N #13/o 1976, #60.1.13/N #13/o 1976, #14.2/G #14.1/F 1963, #14.2/G
#60.1.5/F 1963, #60.2.6/G #14.1/F 1963, #60.2.6/G #60.1.5/F 1963, #14.8/W
#13/w 1949, #60.2.22/W #13/w 1949, #13/q #13/u 1878, #13/3 #13/H 1878, #14.9/Z
#13/3 1865, #13/3 #60.1.25/Z 1865, #13/1 #13/w 1861, #60.1.19/T #13/w 1855,
#14.7/T #13/w 1855, #13/b #13/i 1850, #13/M #13/b 1847, #14.5/N #13/q 1846,
#60.1.13/N #13/q 1846, #14.5/N #14.4/K 1846, #60.1.10/K #60.1.13/N 1846,
#60.1.10/K #14.5/N 1846, #60.1.13/N #14.4/K 1846, #13/k #13/o 1843, #60.1.19/T
#14.6/Q 1838, #14.6/Q #14.7/T 1838, #60.1.19/T #60.2.16/Q 1838, #60.2.16/Q
#14.7/T 1838, #14.1/F #60.1.8/I 1831, #14.1/F #14.3/I 1831, #60.1.5/F
#60.1.8/I 1831, #60.1.5/F #14.3/I 1831, #13/k #60.1.8/I 1826, #13/k #14.3/I
1826, #60.1.31/f #13/M 1809, #14.11/f #13/M 1809, #14.10/c #13/3 1801,
#60.2.28/c #13/3 1801, #14.2/G #13/M 1786, #60.2.6/G #13/M 1786, #60.1.31/f
#60.2.28/c 1626, #60.2.28/c #14.11/f 1626, #60.1.31/f #14.10/c 1626, #14.11/f
#14.10/c 1626, #14.9/Z #60.2.22/W 1520, #60.2.22/W #60.1.25/Z 1520, #14.9/Z
#14.8/W 1520, #14.8/W #60.1.25/Z 1520, #56.2/B #56.3/C 1113, #55.2/B #55.3/C
1112, #55.5/E #56.5/E 887, #55.2/B #56.2/B 807, #14.10/c #60.1.25/Z 807,
#14.9/Z #14.10/c 807, #60.2.28/c #60.1.25/Z 807, #14.9/Z #60.2.28/c 807,
#55.3/C #56.3/C 767, #55.1/A #55.4/D 703, #56.4/D #56.1/A 703, #60.1.31/f
#14.2/G 693, #14.2/G #14.11/f 693, #60.1.31/f #60.2.6/G 693, #60.2.6/G
#14.11/f 693, #55.1/A #56.1/A 676, #13/b #60.1.8/I 667, #13/b #14.3/I 667,
#14.7/T #14.8/W 660, #60.1.19/T #14.8/W 660, #60.2.22/W #60.1.19/T 660,
#60.2.22/W #14.7/T 660, #14.7/T #13/q 653, #60.1.19/T #13/q 653, #14.5/N #13/k
653, #60.1.13/N #13/k 653, #14.1/F #13/M 647, #13/M #60.1.5/F 647, #13/o #13/q
640, #13/u #13/w 639, #60.1.10/K #60.1.8/I 637, #14.4/K #60.1.8/I 637, #14.4/K
#14.3/I 637, #60.1.10/K #14.3/I 637, #13/H #13/M 633, #13/i #13/k 630, #13/1
#13/3 627, #60.1.31/f #13/3 621, #14.11/f #13/3 621, #56.4/D #55.4/D 619,
#14.9/Z #13/w 618, #13/w #60.1.25/Z 618, #55.1/A #55.2/B 596, #56.1/A #56.2/B
595, #55.4/D #55.5/E 424, #56.4/D #56.5/E 424, #14.5/N #60.2.16/Q 423,
#60.1.13/N #60.2.16/Q 423, #60.1.13/N #14.6/Q 423, #14.5/N #14.6/Q 423,
#56.4/D #55.5/E 404, #13/b #56.2/B 326, #14.6/Q #13/u 325, #60.2.16/Q #13/u
325, #14.2/G #13/b 303, #60.2.6/G #13/b 303
> show #!15 models
> hide #!15 models
> show #!7 models
> interfaces
> #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!13#!7.1,4,7,10,13,16,19,22#!55.1-5#!56.1-5#!60.1.5,8,10,13
> & ~solvent
135 buried areas: #60.2.28/c #14.10/c 10945, #60.2.22/W #14.8/W 10878,
#60.2.16/Q #14.6/Q 10686, #14.2/G #60.2.6/G 10593, #60.1.31/f #14.11/f 8486,
#14.1/F #60.1.5/F 8453, #14.9/Z #60.1.25/Z 8453, #60.1.19/T #14.7/T 8451,
#60.1.10/K #14.4/K 8448, #60.1.8/I #14.3/I 8441, #14.5/N #60.1.13/N 8420,
#60.1.31/f #13/H 2051, #14.11/f #13/H 2051, #14.1/F #13/b 2039, #13/b
#60.1.5/F 2039, #13/1 #60.1.25/Z 2037, #14.9/Z #13/1 2037, #14.6/Q #13/q 2013,
#60.2.16/Q #13/q 2013, #13/i #60.1.8/I 2012, #13/i #14.3/I 2012, #60.1.19/T
#13/u 2008, #14.7/T #13/u 2008, #14.4/K #13/k 2000, #60.1.10/K #13/k 2000,
#14.5/N #13/o 1976, #60.1.13/N #13/o 1976, #14.2/G #14.1/F 1963, #14.2/G
#60.1.5/F 1963, #60.2.6/G #14.1/F 1963, #60.2.6/G #60.1.5/F 1963, #14.8/W
#13/w 1949, #60.2.22/W #13/w 1949, #13/q #13/u 1878, #13/3 #13/H 1878, #14.9/Z
#13/3 1865, #13/3 #60.1.25/Z 1865, #13/1 #13/w 1861, #60.1.19/T #13/w 1855,
#14.7/T #13/w 1855, #13/b #13/i 1850, #13/M #13/b 1847, #14.5/N #13/q 1846,
#60.1.13/N #13/q 1846, #14.5/N #14.4/K 1846, #60.1.10/K #14.5/N 1846,
#60.1.10/K #60.1.13/N 1846, #60.1.13/N #14.4/K 1846, #13/k #13/o 1843,
#60.1.19/T #14.6/Q 1838, #14.6/Q #14.7/T 1838, #60.1.19/T #60.2.16/Q 1838,
#60.2.16/Q #14.7/T 1838, #14.1/F #60.1.8/I 1831, #14.1/F #14.3/I 1831,
#60.1.5/F #60.1.8/I 1831, #60.1.5/F #14.3/I 1831, #13/k #60.1.8/I 1826, #13/k
#14.3/I 1826, #60.1.31/f #13/M 1809, #14.11/f #13/M 1809, #14.10/c #13/3 1801,
#60.2.28/c #13/3 1801, #14.2/G #13/M 1786, #60.2.6/G #13/M 1786, #60.1.31/f
#60.2.28/c 1626, #60.2.28/c #14.11/f 1626, #60.1.31/f #14.10/c 1626, #14.11/f
#14.10/c 1626, #14.9/Z #60.2.22/W 1520, #60.2.22/W #60.1.25/Z 1520, #14.9/Z
#14.8/W 1520, #14.8/W #60.1.25/Z 1520, #7.10/S #7.7/H 1315, #7.19/b #7.16/Y
1313, #7.22/e #7.1/A 1305, #56.2/B #56.3/C 1113, #55.2/B #55.3/C 1112, #55.5/E
#56.5/E 887, #55.2/B #56.2/B 807, #14.10/c #60.1.25/Z 807, #14.9/Z #14.10/c
807, #60.2.28/c #60.1.25/Z 807, #14.9/Z #60.2.28/c 807, #55.3/C #56.3/C 767,
#55.1/A #55.4/D 703, #56.4/D #56.1/A 703, #60.1.31/f #14.2/G 693, #14.2/G
#14.11/f 693, #60.1.31/f #60.2.6/G 693, #60.2.6/G #14.11/f 693, #55.1/A
#56.1/A 676, #13/b #60.1.8/I 667, #13/b #14.3/I 667, #14.7/T #14.8/W 660,
#60.1.19/T #14.8/W 660, #60.2.22/W #60.1.19/T 660, #60.2.22/W #14.7/T 660,
#14.7/T #13/q 653, #60.1.19/T #13/q 653, #14.5/N #13/k 653, #60.1.13/N #13/k
653, #14.1/F #13/M 647, #13/M #60.1.5/F 647, #13/o #13/q 640, #13/u #13/w 639,
#60.1.10/K #60.1.8/I 637, #14.4/K #60.1.8/I 637, #14.4/K #14.3/I 637,
#60.1.10/K #14.3/I 637, #13/H #13/M 633, #13/i #13/k 630, #13/1 #13/3 627,
#60.1.31/f #13/3 621, #14.11/f #13/3 621, #56.4/D #55.4/D 619, #14.9/Z #13/w
618, #13/w #60.1.25/Z 618, #55.1/A #55.2/B 596, #56.1/A #56.2/B 595, #7.4/D
#56.5/E 487, #7.10/S #55.3/C 485, #55.4/D #55.5/E 424, #56.4/D #56.5/E 424,
#14.5/N #60.2.16/Q 423, #60.1.13/N #60.2.16/Q 423, #60.1.13/N #14.6/Q 423,
#14.5/N #14.6/Q 423, #56.4/D #55.5/E 404, #13/b #56.2/B 326, #14.6/Q #13/u
325, #60.2.16/Q #13/u 325, #7.10/S #56.3/C 318, #14.2/G #13/b 303, #60.2.6/G
#13/b 303
> select #56.2/B:135
14 atoms, 15 bonds, 1 residue, 1 model selected
> select add #56.3/C:106
22 atoms, 22 bonds, 2 residues, 3 models selected
> select clear
> select #56.2/B:134
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #56.3/C:111
12 atoms, 10 bonds, 2 residues, 3 models selected
> hide #!56.1 models
> hide #!55.2 models
> select add #13/b:195
17 atoms, 14 bonds, 3 residues, 4 models selected
> select subtract #13.5
12 atoms, 10 bonds, 2 residues, 4 models selected
> hide #13.5 models
> show #13.5 models
> hide #13.5 models
> show #13.5 models
> hide #!13 models
> select clear
> interfaces
> #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!7.1,4,7,10,13,16,19,22#!55.1,3-5#!56.2-5#!60.1.5,8,10,13
> & ~solvent
69 buried areas: #60.2.28/c #14.10/c 10945, #60.2.22/W #14.8/W 10878,
#60.2.16/Q #14.6/Q 10686, #14.2/G #60.2.6/G 10593, #60.1.31/f #14.11/f 8486,
#14.1/F #60.1.5/F 8453, #14.9/Z #60.1.25/Z 8453, #60.1.19/T #14.7/T 8451,
#60.1.10/K #14.4/K 8448, #60.1.8/I #14.3/I 8441, #14.5/N #60.1.13/N 8420,
#14.2/G #14.1/F 1963, #14.2/G #60.1.5/F 1963, #60.2.6/G #14.1/F 1963,
#60.2.6/G #60.1.5/F 1963, #14.5/N #14.4/K 1846, #60.1.10/K #60.1.13/N 1846,
#60.1.10/K #14.5/N 1846, #60.1.13/N #14.4/K 1846, #60.1.19/T #14.6/Q 1838,
#14.6/Q #14.7/T 1838, #60.1.19/T #60.2.16/Q 1838, #60.2.16/Q #14.7/T 1838,
#14.1/F #60.1.8/I 1831, #14.1/F #14.3/I 1831, #60.1.5/F #60.1.8/I 1831,
#60.1.5/F #14.3/I 1831, #60.1.31/f #60.2.28/c 1626, #60.2.28/c #14.11/f 1626,
#60.1.31/f #14.10/c 1626, #14.11/f #14.10/c 1626, #14.9/Z #60.2.22/W 1520,
#60.2.22/W #60.1.25/Z 1520, #14.9/Z #14.8/W 1520, #14.8/W #60.1.25/Z 1520,
#7.10/S #7.7/H 1315, #7.19/b #7.16/Y 1313, #7.22/e #7.1/A 1305, #56.2/B
#56.3/C 1113, #55.5/E #56.5/E 887, #14.10/c #60.1.25/Z 807, #14.9/Z #14.10/c
807, #60.2.28/c #60.1.25/Z 807, #14.9/Z #60.2.28/c 807, #55.3/C #56.3/C 767,
#55.1/A #55.4/D 703, #60.1.31/f #14.2/G 693, #14.2/G #14.11/f 693, #60.1.31/f
#60.2.6/G 693, #60.2.6/G #14.11/f 693, #14.7/T #14.8/W 660, #60.1.19/T #14.8/W
660, #60.2.22/W #60.1.19/T 660, #60.2.22/W #14.7/T 660, #60.1.10/K #60.1.8/I
637, #14.4/K #60.1.8/I 637, #14.4/K #14.3/I 637, #60.1.10/K #14.3/I 637,
#56.4/D #55.4/D 619, #7.4/D #56.5/E 487, #7.10/S #55.3/C 485, #55.4/D #55.5/E
424, #56.4/D #56.5/E 424, #14.5/N #60.2.16/Q 423, #60.1.13/N #60.2.16/Q 423,
#60.1.13/N #14.6/Q 423, #14.5/N #14.6/Q 423, #56.4/D #55.5/E 404, #7.10/S
#56.3/C 318
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
442469 distances
> show #19 models
> show
> #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!7.1,4,7,10,13,16,19,22#!55.1,3-5#!56.2-5#!60.1.5,8,10,13
> atoms
> style
> #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!7.1,4,7,10,13,16,19,22#!55.1,3-5#!56.2-5#!60.1.5,8,10,13
> stick
Changed 81795 atom styles
> hide
> #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!7.1,4,7,10,13,16,19,22#!55.1,3-5#!56.2-5#!60.1.5,8,10,13
> atoms
> show
> #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!7.1,4,7,10,13,16,19,22#!55.1,3-5#!56.2-5#!60.1.5,8,10,13
> cartoons
> hide #19 models
> show #!56.1 models
> show #!55.2 models
> hbonds
> #14.1-11#60.1.19,25,31#60.2.6,16,22,28#!7.1,4,7,10,13,16,19,22#!55.1-5#!56.1-5#!60.1.5,8,10,13
> reveal true
42577 hydrogen bonds found
> select add #55.3
1579 atoms, 1594 bonds, 2517 pseudobonds, 202 residues, 3 models selected
> select subtract #55.3
1 model selected
> hide #!55 models
> select add #56.3
1579 atoms, 1594 bonds, 2517 pseudobonds, 202 residues, 3 models selected
> select add #56.2
3190 atoms, 3247 bonds, 4373 pseudobonds, 402 residues, 5 models selected
> hide #!7 models
> hide #!14 models
> show #!14 models
> hide #!14 models
> hide #!60 models
> hide #!56.5 models
> hide #!56.4 models
> hide #!56.1 models
> select clear
> hide #!56.2-3 atoms
Drag select of 402 residues
> select add #56.2
3190 atoms, 1653 bonds, 1856 pseudobonds, 402 residues, 6 models selected
> select add #56.3
3190 atoms, 3247 bonds, 4373 pseudobonds, 402 residues, 6 models selected
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
4027 distances
> show #19 models
> select clear
> select add #56.2
1611 atoms, 1653 bonds, 1856 pseudobonds, 200 residues, 3 models selected
> select add #56.3
3190 atoms, 3247 bonds, 4373 pseudobonds, 402 residues, 5 models selected
> show sel atoms
> style sel stick
Changed 3190 atom styles
> style sel stick
Changed 3190 atom styles
> select clear
> hide #!56.2-3 atoms
> show #!15 models
> hide #!15 models
> show #!7 models
> show #!7.1,4,7,10,13,16,19,22#!56.2-3 cartoons
> hide #!7.1,4,7,10,13,16,19,22#!56.2-3 atoms
> select #7.10/S:186
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #7.10
2616 atoms, 2669 bonds, 220 pseudobonds, 328 residues, 3 models selected
> hide #19 models
> select add #20
2616 atoms, 2669 bonds, 42577 pseudobonds, 328 residues, 3 models selected
> select subtract #20
2616 atoms, 2669 bonds, 328 residues, 2 models selected
> select add #56.3
4195 atoms, 4263 bonds, 2517 pseudobonds, 530 residues, 5 models selected
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
34133 distances
> show #19 models
> show #61 models
> hide sel atoms
> show sel surfaces
> hide sel surfaces
> hide #61 models
> show #61 models
> hide #61 models
> close #7.2-3
> close #7.5-6
> close #7.8-9
> close #7.11-12
> close #7.14-15
> close #7.17-18
> close #7.20-21
> close #7.23-24
> hide #!7 models
> show #!7 models
> hide #!7.1 models
> hide #!7.4 models
> hide #!7.7 models
> hide #!7.13 models
> hide #!7.16 models
> hide #!7.19 models
> hide #!7.22 models
> select clear
> select #7.10/S:226
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #7.10/S:227
21 atoms, 21 bonds, 2 residues, 2 models selected
> select add #7.10/S:225
29 atoms, 28 bonds, 3 residues, 2 models selected
> select add #7.10/S:224
38 atoms, 36 bonds, 4 residues, 2 models selected
> select add #7.10/S:223
49 atoms, 46 bonds, 5 residues, 2 models selected
> select add #56.3/C:93
56 atoms, 52 bonds, 6 residues, 3 models selected
> select add #56.3/C:94
63 atoms, 58 bonds, 7 residues, 4 models selected
> select add #56.3/C:92
69 atoms, 63 bonds, 8 residues, 4 models selected
> select add #56.3/C:91
76 atoms, 69 bonds, 9 residues, 4 models selected
> hide (#!7.10#!56.3 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!7.10#!56.3 & sel-residues)
> show (#!7.10#!56.3 & sel-residues & backbone) target ab
> style sel ball
Changed 76 atom styles
> color (#!7.10#!56.3 & sel) byhetero
> select add #7.10/S:228
84 atoms, 76 bonds, 10 residues, 4 models selected
> select add #7.10/S:222
98 atoms, 91 bonds, 11 residues, 4 models selected
> hide (#!7.10#!56.3 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!7.10#!56.3 & sel-residues)
> show (#!7.10#!56.3 & sel-residues & backbone) target ab
> select add #56.3/C:95
109 atoms, 101 bonds, 12 residues, 4 models selected
> select add #56.3/C:90
117 atoms, 108 bonds, 13 residues, 4 models selected
> hide (#!7.10#!56.3 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!7.10#!56.3 & sel-residues)
> show (#!7.10#!56.3 & sel-residues & backbone) target ab
> select clear
> select #7.10/S:224@O
1 atom, 1 residue, 1 model selected
> select add #56.3/C:92@CA
2 atoms, 2 residues, 3 models selected
> select clear
> select #7.10/S:226@O
1 atom, 1 residue, 1 model selected
> select add #56.3/C:93@O
2 atoms, 2 residues, 3 models selected
> distance #7.10/S:226@O #56.3/C:93@O
Distance between FlaA1_sheath_model S #7.10/S VAL 226 O and Asym_part_2 C
#56.3/C VAL 93 O: 3.979Å
> show #!21 models
> show #21.1 models
> select #7.10/S:224@O
1 atom, 1 residue, 1 model selected
> select add #56.3/C:92@CA
2 atoms, 2 residues, 3 models selected
> distance #7.10/S:224@O #56.3/C:92@CA
Distance between FlaA1_sheath_model S #7.10/S GLU 224 O and Asym_part_2 C
#56.3/C SER 92 CA: 3.649Å
> select add #56.3/C:91@O
3 atoms, 3 residues, 4 models selected
> select subtract #56.3/C:92@CA
2 atoms, 2 residues, 4 models selected
> distance #7.10/S:224@O #56.3/C:91@O
Distance between FlaA1_sheath_model S #7.10/S GLU 224 O and Asym_part_2 C
#56.3/C THR 91 O: 3.488Å
> select add #7.10/S:224@C
3 atoms, 2 residues, 4 models selected
> select subtract #7.10/S:224@O
2 atoms, 2 residues, 4 models selected
> distance #56.3/C:91@O #7.10/S:224@C
Distance between Asym_part_2 C #56.3/C THR 91 O and FlaA1_sheath_model S
#7.10/S GLU 224 C: 3.724Å
> select add #7.10/S:224@N
3 atoms, 1 bond, 2 residues, 4 models selected
> select subtract #7.10/S:224@C
2 atoms, 2 residues, 4 models selected
> distance #56.3/C:91@O #7.10/S:224@N
Distance between Asym_part_2 C #56.3/C THR 91 O and FlaA1_sheath_model S
#7.10/S GLU 224 N: 3.695Å
> hide #19 models
> select clear
> ~distance #56.3/C:91@O #7.10/S:224@C
> ~distance #7.10/S:226@O #56.3/C:93@O
> select clear
Drag select of 35 atoms, 6 residues, 31 bonds, 3 pseudobonds
> select add #56.3
1624 atoms, 1603 bonds, 2520 pseudobonds, 210 residues, 7 models selected
> select subtract #56.3
45 atoms, 9 bonds, 8 residues, 3 models selected
> select add #56.3
1624 atoms, 1603 bonds, 2517 pseudobonds, 210 residues, 5 models selected
> select add #56.2
3235 atoms, 3256 bonds, 4373 pseudobonds, 410 residues, 7 models selected
> select subtract #56.2
1624 atoms, 1603 bonds, 2517 pseudobonds, 210 residues, 7 models selected
> select add #7.10
4195 atoms, 4263 bonds, 6515 pseudobonds, 530 residues, 6 models selected
> select clear
> hide #!56.2 models
> color #21 #3587b7ff models
> hide #21.1 models
> show #19 models
> select #7.10/S:226@O
1 atom, 1 residue, 1 model selected
> select add #56.3/C:93@O
2 atoms, 2 residues, 3 models selected
> distance #7.10/S:226@O #56.3/C:93@O
Distance between FlaA1_sheath_model S #7.10/S VAL 226 O and Asym_part_2 C
#56.3/C VAL 93 O: 3.979Å
> select #7.10/S:224@O
1 atom, 1 residue, 1 model selected
> select #7.10/S:224@C
1 atom, 1 residue, 1 model selected
> select add #56.3/C:91@O
2 atoms, 2 residues, 3 models selected
> distance #7.10/S:224@C #56.3/C:91@O
Distance between FlaA1_sheath_model S #7.10/S GLU 224 C and Asym_part_2 C
#56.3/C THR 91 O: 3.724Å
> hide #19 models
> color #21 #3587b7ff models
> show #21.1 models
> hide #21.1 models
> select clear
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaA1_HEAT_inter.png
> width 1625 height 1210 supersample 3 transparentBackground true
> select #7.10/S:226@C
1 atom, 1 residue, 1 model selected
> select #7.10/S:224@C
1 atom, 1 residue, 1 model selected
> show #21.1 models
> select #56.3/C:93@C
1 atom, 1 residue, 1 model selected
> select #56.3/C:91@O
1 atom, 1 residue, 1 model selected
> select #56.3/C:92@CA
1 atom, 1 residue, 1 model selected
> select #56.3/C:93@O
1 atom, 1 residue, 1 model selected
> hide #21.1 models
> select add #21
7 pseudobonds, 2 models selected
> select subtract #21
Nothing selected
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaA1_HEAT_complex.png
> width 1625 height 1210 supersample 3 transparentBackground true
> hide #!56.3 models
> show #!56.1 models
> show #!56.2 models
> show #!56.3 models
> show #!56.4 models
> show #!56.5 models
> hide #!56 models
> hide #!21 models
> hide #!7 models
> show #5 models
> hide #5 atoms
> show #5 cartoons
> show #!60 models
> hide #5 models
> hide #!60 models
> show #!13 models
> show #!14 models
> hide #14.2,5,7-8,10#!13#!14.1,3-4,6,9,11 atoms
> show #14.1-11#!13 cartoons
> select add #13
24002 atoms, 24145 bonds, 3146 residues, 1 model selected
> show sel cartoons
> hide sel atoms
> select add #14
48004 atoms, 48290 bonds, 2994 pseudobonds, 6292 residues, 25 models selected
> show sel cartoons
> hide sel atoms
> select subtract #13
24002 atoms, 24145 bonds, 2994 pseudobonds, 3146 residues, 24 models selected
> select subtract #14
Nothing selected
> interfaces #14.1-11#!13 & ~solvent
46 buried areas: #14.11/f #13/H 2051, #14.1/F #13/b 2039, #14.9/Z #13/1 2037,
#14.6/Q #13/q 2013, #13/i #14.3/I 2012, #14.7/T #13/u 2008, #14.4/K #13/k
2000, #14.5/N #13/o 1976, #14.2/G #14.1/F 1963, #14.8/W #13/w 1949, #13/q
#13/u 1878, #13/3 #13/H 1878, #14.9/Z #13/3 1865, #13/1 #13/w 1861, #14.7/T
#13/w 1855, #13/b #13/i 1850, #13/M #13/b 1847, #14.5/N #13/q 1846, #14.5/N
#14.4/K 1846, #13/k #13/o 1843, #14.6/Q #14.7/T 1838, #14.1/F #14.3/I 1831,
#13/k #14.3/I 1826, #14.11/f #13/M 1809, #14.10/c #13/3 1801, #14.2/G #13/M
1786, #14.11/f #14.10/c 1626, #14.9/Z #14.8/W 1520, #14.9/Z #14.10/c 807,
#14.2/G #14.11/f 693, #13/b #14.3/I 667, #14.7/T #14.8/W 660, #14.7/T #13/q
653, #14.5/N #13/k 653, #14.1/F #13/M 647, #13/o #13/q 640, #13/u #13/w 639,
#14.4/K #14.3/I 637, #13/H #13/M 633, #13/i #13/k 630, #13/1 #13/3 627,
#14.11/f #13/3 621, #14.9/Z #13/w 618, #14.5/N #14.6/Q 423, #14.6/Q #13/u 325,
#14.2/G #13/b 303
> select add #13.11
2182 atoms, 286 residues, 1 model selected
> select subtract #13.11
1 model selected
> select clear
> select add #13.1
2182 atoms, 286 residues, 1 model selected
> select add #13.2
4364 atoms, 572 residues, 2 models selected
> select subtract #13.2
2182 atoms, 286 residues, 3 models selected
> select #14.9/Z:206
4 atoms, 3 bonds, 1 residue, 1 model selected
> select add #13/1:195
9 atoms, 7 bonds, 2 residues, 2 models selected
> select add #14
24007 atoms, 24149 bonds, 2994 pseudobonds, 3147 residues, 15 models selected
> select subtract #14
5 atoms, 4 bonds, 1 residue, 2 models selected
> select add #14.9/Z:209
14 atoms, 12 bonds, 2 residues, 3 models selected
> select add #14.9
2187 atoms, 2199 bonds, 279 pseudobonds, 287 residues, 4 models selected
> hide #14.1-11 target m
> show #14.9 models
> hide #13.1-11 target m
> show #13.1 models
> hide #13.1 models
> show #13.1 models
> hide #!13 models
> show #!13 models
> hide #!13 target m
> show #!13 models
> show #13.2 models
> hide #13.2 models
> select subtract #13.1
2182 atoms, 2195 bonds, 279 pseudobonds, 286 residues, 3 models selected
> select add #13.1
4364 atoms, 2195 bonds, 279 pseudobonds, 572 residues, 3 models selected
> show #13.1-11 target m
> hide #!13 models
> show #!13 models
> hide #13.1 models
> hide #13.2 models
> hide #13.3 models
> show #13.1 models
> show #13.2 models
> show #13.3 models
> show sel surfaces
> hide sel surfaces
> select subtract #13.1
2182 atoms, 2195 bonds, 279 pseudobonds, 286 residues, 4 models selected
> select add #13
26184 atoms, 26340 bonds, 279 pseudobonds, 3432 residues, 4 models selected
> show sel surfaces
> hide sel surfaces
> show sel cartoons
> hide sel atoms
> hide #13.1 models
> show #13.1 models
> hide #!13 models
> show #!13 models
> select subtract #13
2182 atoms, 2195 bonds, 279 pseudobonds, 286 residues, 14 models selected
> select add #13.1
4364 atoms, 2195 bonds, 279 pseudobonds, 572 residues, 4 models selected
> select add #20
4364 atoms, 2195 bonds, 42577 pseudobonds, 572 residues, 5 models selected
> select subtract #20
4364 atoms, 2195 bonds, 572 residues, 4 models selected
> hide #!13 target m
> show #!13 target m
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/Fig_data/FlaB1_core_one-
> layer-1.pdb
Chain information for FlaB1_core_one-layer-1.pdb #16
---
Chain | Description
1 3 H M b i k o q u w | No description available
> split #16
Split FlaB1_core_one-layer-1.pdb (#16) into 11 models
Chain information for FlaB1_core_one-layer-1.pdb 1 #16.1
---
Chain | Description
1 | No description available
Chain information for FlaB1_core_one-layer-1.pdb 3 #16.2
---
Chain | Description
3 | No description available
Chain information for FlaB1_core_one-layer-1.pdb H #16.3
---
Chain | Description
H | No description available
Chain information for FlaB1_core_one-layer-1.pdb M #16.4
---
Chain | Description
M | No description available
Chain information for FlaB1_core_one-layer-1.pdb b #16.5
---
Chain | Description
b | No description available
Chain information for FlaB1_core_one-layer-1.pdb i #16.6
---
Chain | Description
i | No description available
Chain information for FlaB1_core_one-layer-1.pdb k #16.7
---
Chain | Description
k | No description available
Chain information for FlaB1_core_one-layer-1.pdb o #16.8
---
Chain | Description
o | No description available
Chain information for FlaB1_core_one-layer-1.pdb q #16.9
---
Chain | Description
q | No description available
Chain information for FlaB1_core_one-layer-1.pdb u #16.10
---
Chain | Description
u | No description available
Chain information for FlaB1_core_one-layer-1.pdb w #16.11
---
Chain | Description
w | No description available
> hide #!16 models
> show #!16 models
> hide #16.1 models
> show #16.1 models
> close #13
> rename #16 id #13
> select add #13
26184 atoms, 26340 bonds, 3432 residues, 14 models selected
> hide sel atoms
> show sel cartoons
> color #13 #fff6b6ff models
> select subtract #13
2182 atoms, 2195 bonds, 286 residues, 2 models selected
> select add #13.1
4364 atoms, 4390 bonds, 572 residues, 3 models selected
> hide #13.1 models
> show #13.1 models
> hide #13.2 models
> hide #13.3 models
> hide #13.4 models
> hide #13.5 models
> hide #13.6 models
> hide #13.7 models
> hide #13.8 models
> hide #13.9 models
> hide #13.10 models
> hide #13.11 models
> select clear
> color #13.1 #ffdb8eff
> color #13.1 #fff6b6ff
> color #13.1 #febe0eff
> interfaces #13.1#!14.9 & ~solvent
1 buried areas: #14.9/Z #13.1/1 2037
> show sel atoms
> style sel sphere
Changed 643 atom styles
> hide sel atoms
> select clear
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
7087 distances
> show #19 models
> select #14.9/Z:154
14 atoms, 15 bonds, 1 residue, 1 model selected
> select #14.9/Z:155
11 atoms, 11 bonds, 1 residue, 1 model selected
> select add #14.9/Z:154
25 atoms, 26 bonds, 2 residues, 2 models selected
> select add #14.9/Z:153
33 atoms, 33 bonds, 3 residues, 2 models selected
> select add #13.1/1:99
41 atoms, 40 bonds, 4 residues, 3 models selected
> select add #13.1/1:100
45 atoms, 43 bonds, 5 residues, 3 models selected
> select add #14.9/Z:152
51 atoms, 48 bonds, 6 residues, 3 models selected
> select add #14.9/Z:156
61 atoms, 58 bonds, 7 residues, 3 models selected
> select add #13.1/1:101
69 atoms, 65 bonds, 8 residues, 3 models selected
> select add #13.1/1:98
75 atoms, 70 bonds, 9 residues, 3 models selected
> hide (#13.1#!14.9 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#13.1#!14.9 & sel-residues)
> show (#13.1#!14.9 & sel-residues & backbone) target ab
> style sel ball
Changed 75 atom styles
> color (#13.1#!14.9 & sel) byhetero
> color (#13.1#!14.9 & sel) #fff6b6ff
> color (#13.1#!14.9 & sel) #febe0eff
Alignment identifier is 1
> select subtract #14.9/Z:152@CA
74 atoms, 67 bonds, 9 residues, 3 models selected
> select #14.9/Z:98 #13.1/1:98
12 atoms, 10 bonds, 2 residues, 2 models selected
> select #14.9/Z:98-101 #13.1/1:98-101
52 atoms, 50 bonds, 17 pseudobonds, 8 residues, 4 models selected
1 [ID: 1] region chains 1,Z [98-101] RMSD: 51.910
> select #14.9/Z:153@CA
1 atom, 1 residue, 1 model selected
> select add #14.9/Z:152@CA
2 atoms, 2 residues, 2 models selected
> select add #14.9/Z:154@CA
3 atoms, 3 residues, 2 models selected
> select #14.9/Z:152 #13.1/1:152
12 atoms, 10 bonds, 2 residues, 2 models selected
> select #14.9/Z:152-156 #13.1/1:152-156
98 atoms, 104 bonds, 29 pseudobonds, 10 residues, 3 models selected
1 [ID: 1] region chains 1,Z [152-156] RMSD: 52.048
> color (#13.1#!14.9 & sel) #fff6b6ff
> select clear
> select #14.9/Z:154@C
1 atom, 1 residue, 1 model selected
> select #14.9/Z:154-155 #13.1/1:154-155
50 atoms, 54 bonds, 1 pseudobond, 4 residues, 3 models selected
> select #14.9/Z:155 #13.1/1:155
22 atoms, 22 bonds, 2 residues, 2 models selected
> select #14.9/Z:154-155 #13.1/1:154-155
50 atoms, 54 bonds, 1 pseudobond, 4 residues, 3 models selected
> select #14.9/Z:155 #13.1/1:155
22 atoms, 22 bonds, 2 residues, 2 models selected
> select #14.9/Z:155-156 #13.1/1:155-156
42 atoms, 44 bonds, 4 residues, 2 models selected
1 [ID: 1] region chains 1,Z [155-156] RMSD: 51.918
> select #14.9/Z:154 #13.1/1:154
28 atoms, 30 bonds, 2 residues, 2 models selected
> select #14.9/Z:154 #13.1/1:154
28 atoms, 30 bonds, 2 residues, 2 models selected
1 [ID: 1] region chains 1,Z [154] RMSD: 52.219
> select #14.9/Z:156 #13.1/1:156
20 atoms, 20 bonds, 2 residues, 2 models selected
> select #14.9/Z:155-156 #13.1/1:155-156
42 atoms, 44 bonds, 4 residues, 2 models selected
1 [ID: 1] region chains 1,Z [155-156] RMSD: 51.918
> select #14.9/Z:154 #13.1/1:154
28 atoms, 30 bonds, 2 residues, 2 models selected
> select #14.9/Z:154-155 #13.1/1:154-155
50 atoms, 54 bonds, 1 pseudobond, 4 residues, 3 models selected
1 [ID: 1] region chains 1,Z [154-155] RMSD: 52.074
> select clear
> select #14.9/Z:154 #13.1/1:154
28 atoms, 30 bonds, 2 residues, 2 models selected
> select #14.9/Z:154 #13.1/1:154
28 atoms, 30 bonds, 2 residues, 2 models selected
1 [ID: 1] region chains 1,Z [154] RMSD: 52.219
> color (#13.1#!14.9 & sel) byhetero
> select #13.1/1:100@N
1 atom, 1 residue, 1 model selected
> select #14.9/Z:100 #13.1/1:100
8 atoms, 6 bonds, 2 residues, 2 models selected
> select #14.9/Z:100-102 #13.1/1:100-102
48 atoms, 48 bonds, 22 pseudobonds, 6 residues, 3 models selected
1 [ID: 1] region chains 1,Z [100-102] RMSD: 51.909
> select #14.9/Z:98 #13.1/1:98
12 atoms, 10 bonds, 2 residues, 2 models selected
> select #14.9/Z:98-100 #13.1/1:98-100
36 atoms, 34 bonds, 7 pseudobonds, 6 residues, 4 models selected
1 [ID: 1] region chains 1,Z [98-100] RMSD: 51.908
> color #19 #a9fab5ff models
> color #19 forestgreen models
> select clear
> select #13.1/1:100@CA
1 atom, 1 residue, 1 model selected
> select add #13.1/1:100@N
2 atoms, 1 residue, 1 model selected
> select add #13.1/1:99@CA
3 atoms, 2 residues, 1 model selected
> select add #13.1/1:98@O
4 atoms, 3 residues, 1 model selected
> select add #13.1/1:99@C
5 atoms, 3 residues, 1 model selected
> select #14.9/Z:98 #13.1/1:98
12 atoms, 10 bonds, 2 residues, 2 models selected
> select #14.9/Z:98-100 #13.1/1:98-100
36 atoms, 34 bonds, 7 pseudobonds, 6 residues, 4 models selected
1 [ID: 1] region chains 1,Z [98-100] RMSD: 51.908
> color (#13.1#!14.9 & sel) byhetero
> select clear
> select add #19
7087 pseudobonds, 1 model selected
> select subtract #19
Nothing selected
> select #13.1/1:100@CA
1 atom, 1 residue, 1 model selected
> select add #14.9/Z:154@O
2 atoms, 2 residues, 2 models selected
> distance #13.1/1:100@CA #14.9/Z:154@O
Distance between FlaB1_core_one-layer-1.pdb 1 #13.1/1 GLY 100 CA and
core_one_layer_2 Z #14.9/Z TRP 154 O: 3.554Å
> show #!21 models
> show #21.1 models
> color #21 forestgreen models
> color #21 #3587b7ff models
> select #13.1/1:100@N
1 atom, 1 residue, 1 model selected
> select add #14.9/Z:154@C
2 atoms, 2 residues, 2 models selected
> distance #13.1/1:100@N #14.9/Z:154@C
Distance between FlaB1_core_one-layer-1.pdb 1 #13.1/1 GLY 100 N and
core_one_layer_2 Z #14.9/Z TRP 154 C: 3.967Å
> select subtract #14.9/Z:154@C
1 atom, 1 residue, 2 models selected
> select add #14.9/Z:154@O
2 atoms, 2 residues, 2 models selected
> distance #13.1/1:100@N #14.9/Z:154@O
Distance between FlaB1_core_one-layer-1.pdb 1 #13.1/1 GLY 100 N and
core_one_layer_2 Z #14.9/Z TRP 154 O: 2.879Å
> select subtract #13.1/1:100@N
1 atom, 1 residue, 2 models selected
> select add #13.1/1:99@C
2 atoms, 2 residues, 3 models selected
> distance #14.9/Z:154@O #13.1/1:99@C
Distance between core_one_layer_2 Z #14.9/Z TRP 154 O and FlaB1_core_one-
layer-1.pdb 1 #13.1/1 ASN 99 C: 3.471Å
> select add #13.1/1:100@N
3 atoms, 3 residues, 3 models selected
> select subtract #13.1/1:100@N
2 atoms, 2 residues, 3 models selected
> select subtract #13.1/1:99@C
1 atom, 1 residue, 2 models selected
> select add #13.1/1:98@O
2 atoms, 2 residues, 3 models selected
> select subtract #13.1/1:98@O
1 atom, 1 residue, 2 models selected
> select add #13.1/1:99@CA
2 atoms, 2 residues, 3 models selected
> distance #14.9/Z:154@O #13.1/1:99@CA
Distance between core_one_layer_2 Z #14.9/Z TRP 154 O and FlaB1_core_one-
layer-1.pdb 1 #13.1/1 ASN 99 CA: 3.654Å
> select add #13.1/1:98@O
3 atoms, 1 pseudobond, 3 residues, 4 models selected
> select clear
> select add #14.9/Z:154@O
1 atom, 1 residue, 1 model selected
> select add #13.1/1:98@O
2 atoms, 2 residues, 3 models selected
> distance #14.9/Z:154@O #13.1/1:98@O
Distance between core_one_layer_2 Z #14.9/Z TRP 154 O and FlaB1_core_one-
layer-1.pdb 1 #13.1/1 SER 98 O: 3.349Å
> color #21 forestgreen models
> color #21 #3587b7ff models
> select #14.9/Z:66
5 atoms, 4 bonds, 1 residue, 1 model selected
> select clear
> hide #19 models
> hide #21.1 models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaB1_FlaB1_inter-1.png
> width 1625 height 1210 supersample 3 transparentBackground true
> hide #!21 models
> show #!21 models
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaB1_FlaB1_complex-1.png
> width 1625 height 1210 supersample 3 transparentBackground true
> hide #!21 models
> show #13.1#!14.9 cartoons
> show #14.8 models
> hide #!14.9 models
> show #!14.9 models
> hide #14.8 models
> show #14.8 models
> hide #!14.9 models
> show #!14.9 models
> hide #13.1 models
> color #14.8 #febe0eff
> color #14.8 #ffb512ff
> color #14.8 #febe0eff
> color #13.1 #ffb512ff
> color #13.1 #febe0eff
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
6886 distances
> show #19 models
> show #14.10 models
> ui tool show Contacts
> contacts ignoreHiddenModels true
5021 contacts
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
10321 distances
> hide #19 models
> hide #!14 models
> hide #!13 models
> show #!15 models
> hide #!15 models
> show #!18 models
> hide #!18 models
> show #!7 models
> show #!7.7 models
> show #!7.4 models
> hide #!7.4 models
> show #!7.13 models
> show #!7.7,10,13 cartoons
> show #!7.1 models
> show #!7.4 models
> show #!7.16 models
> show #!7.19 models
> show #!7.22 models
> hide #!7 models
> show #!18 models
> show #!18 cartoons
> hide #!18 surfaces
> hide #!18 atoms
> select #18/T:309
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #18/U:304
18 atoms, 16 bonds, 2 residues, 2 models selected
> select add #18/W:224
27 atoms, 24 bonds, 3 residues, 3 models selected
> select add #18/X:185
35 atoms, 31 bonds, 4 residues, 4 models selected
> hide #18.1 models
> hide #18.2 models
> hide #18.3 models
> hide #18.4 models
> hide #18.5 models
> hide #18.6 models
> hide #18.7 models
> hide #18.8 models
> hide #18.9 models
> hide #18.10 models
> hide #18.11-16 target m
> hide #18.17 models
> hide #18.18 models
> hide #18.19 models
> hide #18.22 models
> hide #18.25-33 target m
> hide #!18 models
> show #!18 models
Drag select of 10824 residues
> select clear
> hide #!18 models
> select add #18
86328 atoms, 88077 bonds, 10824 residues, 1 model selected
> show #!18 models
> close #20
> hide #!18 models
> select subtract #18
33 models selected
> show #!59 models
> hide #59.1-2,4-8,10-11,13,15-17,19-26,28-29,31,33#!59.3,9,12,14,18,27,30,32
> cartoons
> show #59.1-2,6-7,11,16,21,33#!59.3-5,8-10,12-15,17-20,22-32 cartoons
> show #59.1-2,4-8,10-11,13,15-17,19-26,28-29,31,33#!59.3,9,12,14,18,27,30,32
> cartoons
> hide #59.1-2,4-8,10-11,13,15-17,19-26,28-29,31,33#!59.3,9,12,14,18,27,30,32
> atoms
> hide #59.1 models
> show #59.1 models
> select #59.5/E:312
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #59.8/H:330
18 atoms, 16 bonds, 2 residues, 2 models selected
> select add #59.20/T:187
25 atoms, 22 bonds, 3 residues, 3 models selected
> select add #59.21/U:26
33 atoms, 29 bonds, 4 residues, 4 models selected
> hide #59.4 models
> hide #!59.3 models
> hide #59.2 models
> hide #59.1 models
> hide #59.10-11,13,15-17,19#!59.9,12,14,18 target m
> hide #59.22-26,28-29,31,33#!59.27,30,32 target m
> hide #59.6 models
> hide #59.7 models
> select clear
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
15045 distances
> show #19 models
> color #59.5 #a9fab5ff
> color #59.8 #58ac5aff
> color #59.20 #80e388ff
> color #59.21 #a9fab5ff
> color #59.8 #a9fab5ff
> color #59.8 #58ac5aff
> color #59.20 forestgreen
> color #59.21 #3587b7ff
> color #59.21 forestgreen
> color #59.21 #1a6b20ff
> color #59.21 #3eff4cff
> color #59.21 #39ec46ff
> color #59.21 #37e243ff
> color #59.21 #35da41ff
> color #59.21 #a9fab5ff
> color #59.21 #cefae6ff
> color #59.21 #c8fac3ff
> color #59.21 #cafac5ff
> color #59.21 #d4fad6ff
> color #59.21 #d7fdd8ff
> color #19 forestgreen models
> color #19 #feff46ff models
> color #19 forestgreen models
> color #19 #ffdb8eff models
> color #19 #fdd900ff models
> color #19 #bbbbbbff models
> color #19 #edaf00ff models
> color #19 #ffb7e4ff models
> show #!1 models
> hide #!1 models
> show #!2 models
> hide #!2 models
> show #!4 models
> hide #!4 models
> show #!6 models
> hide #!6 models
> show #!103 models
> show #59.1 models
> show #59.2 models
> show #!59.3 models
> show #59.4 models
> show #59.6 models
> show #59.7 models
> show #59.10-11,13,15-17,19#!59.9,12,14,18 target m
> show #59.22-26,28-29,31,33#!59.27,30,32 target m
> combine #59
> show #!15 models
> hide #!15 models
> show #!18 models
> hide #!18 models
> close #18
> rename #16 FlaA1_all_sym_model
> rename #16 id #18
> show #!102 models
> hide #!103 models
> hide #!102 models
> show #!101 models
> surface dust #101 size 10.7
> ui tool show "Volume Viewer"
> volume #101 level 0.13
> volume #101 level 0.14
> volume #101 level 0.135
> ui mousemode right "translate selected models"
> hide #!59 models
> show #!59 models
> hide #!59 models
> select add #18
86328 atoms, 88077 bonds, 10824 residues, 1 model selected
> hide #19 models
> ui mousemode right "rotate selected models"
> view matrix models
> #18,-0.5813,0.8061,-0.11087,164.44,0.8051,0.58955,0.065204,-99.422,0.11792,-0.051357,-0.99169,364.42
> view matrix models
> #18,-0.58533,0.80895,-0.054693,153.67,0.80474,0.58787,0.082526,-102.43,0.098911,0.0042919,-0.99509,358.13
> ui mousemode right "translate selected models"
> view matrix models
> #18,-0.58533,0.80895,-0.054693,154.57,0.80474,0.58787,0.082526,-101.83,0.098911,0.0042919,-0.99509,362.59
> ui tool show "Fit in Map"
> fitmap #18 inMap #101
Fit molecule FlaA1_all_sym_model (#18) to map
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) using 86328 atoms
average map value = 0.08181, steps = 200
shifted from previous position = 13.6
rotated from previous position = 11.4 degrees
atoms outside contour = 65165, contour level = 0.135
Position of FlaA1_all_sym_model (#18) relative to
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) coordinates:
Matrix rotation and translation
-0.44624110 0.89486913 -0.00884012 106.01635968
0.89486097 0.44608714 -0.01517198 -61.73876115
-0.00963349 -0.01468104 -0.99984583 381.49121526
Axis 0.52618640 0.85032432 -0.00874248
Axis point 72.16268381 0.00000000 190.41368449
Rotation angle (degrees) 179.97327092
Shift along axis -0.04878221
> hide #!101 models
> ui mousemode right select
> select clear
> show #!59 models
> mmaker #59 to #18
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaA1_all_sym_model, chain A (#18) with
FlaA1_sheath_monox33_real_refine.pdb A, chain A (#59.1), sequence alignment
score = 1664.5
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
Matchmaker FlaA1_all_sym_model, chain B (#18) with
FlaA1_sheath_monox33_real_refine.pdb B, chain B (#59.2), sequence alignment
score = 1668.7
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
Matchmaker FlaA1_all_sym_model, chain C (#18) with
FlaA1_sheath_monox33_real_refine.pdb C, chain C (#59.3), sequence alignment
score = 1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
Matchmaker FlaA1_all_sym_model, chain B (#18) with
FlaA1_sheath_monox33_real_refine.pdb D, chain D (#59.4), sequence alignment
score = 1668.7
RMSD between 325 pruned atom pairs is 0.235 angstroms; (across all 328 pairs:
0.397)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb E, chain E (#59.5), sequence alignment
score = 1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
Matchmaker FlaA1_all_sym_model, chain F (#18) with
FlaA1_sheath_monox33_real_refine.pdb F, chain F (#59.6), sequence alignment
score = 1667.5
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
Matchmaker FlaA1_all_sym_model, chain B (#18) with
FlaA1_sheath_monox33_real_refine.pdb G, chain G (#59.7), sequence alignment
score = 1668.7
RMSD between 323 pruned atom pairs is 0.165 angstroms; (across all 328 pairs:
0.803)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb H, chain H (#59.8), sequence alignment
score = 1665.1
RMSD between 327 pruned atom pairs is 0.132 angstroms; (across all 328 pairs:
0.377)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb I, chain I (#59.9), sequence alignment
score = 1665.1
RMSD between 325 pruned atom pairs is 0.141 angstroms; (across all 328 pairs:
0.697)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb J, chain J (#59.10), sequence alignment
score = 1665.1
RMSD between 322 pruned atom pairs is 0.085 angstroms; (across all 328 pairs:
0.574)
Matchmaker FlaA1_all_sym_model, chain K (#18) with
FlaA1_sheath_monox33_real_refine.pdb K, chain K (#59.11), sequence alignment
score = 1666.9
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb L, chain L (#59.12), sequence alignment
score = 1665.1
RMSD between 324 pruned atom pairs is 0.148 angstroms; (across all 328 pairs:
0.574)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb M, chain M (#59.13), sequence alignment
score = 1665.1
RMSD between 326 pruned atom pairs is 0.183 angstroms; (across all 328 pairs:
0.463)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb N, chain N (#59.14), sequence alignment
score = 1665.1
RMSD between 324 pruned atom pairs is 0.143 angstroms; (across all 328 pairs:
0.420)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb O, chain O (#59.15), sequence alignment
score = 1665.1
RMSD between 326 pruned atom pairs is 0.229 angstroms; (across all 328 pairs:
0.358)
Matchmaker FlaA1_all_sym_model, chain P (#18) with
FlaA1_sheath_monox33_real_refine.pdb P, chain P (#59.16), sequence alignment
score = 1669.3
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb Q, chain Q (#59.17), sequence alignment
score = 1665.1
RMSD between 325 pruned atom pairs is 0.060 angstroms; (across all 328 pairs:
0.336)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb R, chain R (#59.18), sequence alignment
score = 1665.1
RMSD between 327 pruned atom pairs is 0.148 angstroms; (across all 328 pairs:
0.392)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb S, chain S (#59.19), sequence alignment
score = 1665.1
RMSD between 328 pruned atom pairs is 0.260 angstroms; (across all 328 pairs:
0.260)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb T, chain T (#59.20), sequence alignment
score = 1665.1
RMSD between 327 pruned atom pairs is 0.222 angstroms; (across all 328 pairs:
0.400)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb U, chain U (#59.21), sequence alignment
score = 1665.1
RMSD between 325 pruned atom pairs is 0.240 angstroms; (across all 328 pairs:
0.780)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb V, chain V (#59.22), sequence alignment
score = 1665.1
RMSD between 325 pruned atom pairs is 0.187 angstroms; (across all 328 pairs:
0.329)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb W, chain W (#59.23), sequence alignment
score = 1665.1
RMSD between 324 pruned atom pairs is 0.153 angstroms; (across all 328 pairs:
0.322)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb X, chain X (#59.24), sequence alignment
score = 1665.1
RMSD between 325 pruned atom pairs is 0.250 angstroms; (across all 328 pairs:
0.526)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb Y, chain Y (#59.25), sequence alignment
score = 1665.1
RMSD between 323 pruned atom pairs is 0.153 angstroms; (across all 328 pairs:
0.464)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb Z, chain Z (#59.26), sequence alignment
score = 1665.1
RMSD between 326 pruned atom pairs is 0.171 angstroms; (across all 328 pairs:
0.347)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb a, chain a (#59.27), sequence alignment
score = 1665.1
RMSD between 325 pruned atom pairs is 0.134 angstroms; (across all 328 pairs:
0.532)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb b, chain b (#59.28), sequence alignment
score = 1665.1
RMSD between 325 pruned atom pairs is 0.143 angstroms; (across all 328 pairs:
0.384)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb c, chain c (#59.29), sequence alignment
score = 1665.1
RMSD between 325 pruned atom pairs is 0.097 angstroms; (across all 328 pairs:
0.447)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb d, chain d (#59.30), sequence alignment
score = 1665.1
RMSD between 323 pruned atom pairs is 0.155 angstroms; (across all 328 pairs:
0.426)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb e, chain e (#59.31), sequence alignment
score = 1665.1
RMSD between 321 pruned atom pairs is 0.242 angstroms; (across all 328 pairs:
0.735)
Matchmaker FlaA1_all_sym_model, chain E (#18) with
FlaA1_sheath_monox33_real_refine.pdb f, chain f (#59.32), sequence alignment
score = 1665.1
RMSD between 326 pruned atom pairs is 0.078 angstroms; (across all 328 pairs:
0.279)
Matchmaker FlaA1_all_sym_model, chain B (#18) with
FlaA1_sheath_monox33_real_refine.pdb g, chain g (#59.33), sequence alignment
score = 1668.7
RMSD between 323 pruned atom pairs is 0.132 angstroms; (across all 328 pairs:
0.796)
> hide #!59 models
> show #!59 models
> hide #18 models
> show #18 models
> hide #18 models
> close #59
> split #18
Split FlaA1_all_sym_model (#18) into 33 models
Chain information for FlaA1_all_sym_model A #18.1
---
Chain | Description
A | No description available
Chain information for FlaA1_all_sym_model B #18.2
---
Chain | Description
B | No description available
Chain information for FlaA1_all_sym_model C #18.3
---
Chain | Description
C | No description available
Chain information for FlaA1_all_sym_model D #18.4
---
Chain | Description
D | No description available
Chain information for FlaA1_all_sym_model E #18.5
---
Chain | Description
E | No description available
Chain information for FlaA1_all_sym_model F #18.6
---
Chain | Description
F | No description available
Chain information for FlaA1_all_sym_model G #18.7
---
Chain | Description
G | No description available
Chain information for FlaA1_all_sym_model H #18.8
---
Chain | Description
H | No description available
Chain information for FlaA1_all_sym_model I #18.9
---
Chain | Description
I | No description available
Chain information for FlaA1_all_sym_model J #18.10
---
Chain | Description
J | No description available
Chain information for FlaA1_all_sym_model K #18.11
---
Chain | Description
K | No description available
Chain information for FlaA1_all_sym_model L #18.12
---
Chain | Description
L | No description available
Chain information for FlaA1_all_sym_model M #18.13
---
Chain | Description
M | No description available
Chain information for FlaA1_all_sym_model N #18.14
---
Chain | Description
N | No description available
Chain information for FlaA1_all_sym_model O #18.15
---
Chain | Description
O | No description available
Chain information for FlaA1_all_sym_model P #18.16
---
Chain | Description
P | No description available
Chain information for FlaA1_all_sym_model Q #18.17
---
Chain | Description
Q | No description available
Chain information for FlaA1_all_sym_model R #18.18
---
Chain | Description
R | No description available
Chain information for FlaA1_all_sym_model S #18.19
---
Chain | Description
S | No description available
Chain information for FlaA1_all_sym_model T #18.20
---
Chain | Description
T | No description available
Chain information for FlaA1_all_sym_model U #18.21
---
Chain | Description
U | No description available
Chain information for FlaA1_all_sym_model V #18.22
---
Chain | Description
V | No description available
Chain information for FlaA1_all_sym_model W #18.23
---
Chain | Description
W | No description available
Chain information for FlaA1_all_sym_model X #18.24
---
Chain | Description
X | No description available
Chain information for FlaA1_all_sym_model Y #18.25
---
Chain | Description
Y | No description available
Chain information for FlaA1_all_sym_model Z #18.26
---
Chain | Description
Z | No description available
Chain information for FlaA1_all_sym_model a #18.27
---
Chain | Description
a | No description available
Chain information for FlaA1_all_sym_model b #18.28
---
Chain | Description
b | No description available
Chain information for FlaA1_all_sym_model c #18.29
---
Chain | Description
c | No description available
Chain information for FlaA1_all_sym_model d #18.30
---
Chain | Description
d | No description available
Chain information for FlaA1_all_sym_model e #18.31
---
Chain | Description
e | No description available
Chain information for FlaA1_all_sym_model f #18.32
---
Chain | Description
f | No description available
Chain information for FlaA1_all_sym_model g #18.33
---
Chain | Description
g | No description available
> show #18.1-33 target m
> show #!101 models
> hide #!101 models
> show #!100 models
> hide #!100 models
> show #!101 models
> show #!102 models
> hide #!102 models
> color #18 #ffb7e4ff models
> select add #18
86328 atoms, 88077 bonds, 10824 residues, 34 models selected
> color #18 #ffacfcff models
> select subtract #18
Nothing selected
> select add #18
86328 atoms, 88077 bonds, 10824 residues, 34 models selected
> color #18 #ffb7e4ff models
> color #18 #a9fab5ff models
> select clear
> select #18.10/J:308
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #18.9/I:312
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #18.6/F:312
25 atoms, 22 bonds, 3 residues, 3 models selected
> select add #18.12/L:312
34 atoms, 30 bonds, 4 residues, 4 models selected
> hide #18.1 models
> hide #18.2 models
> hide #18.3 models
> hide #18.4 models
> hide #18.5 models
> hide #18.7 models
> hide #18.8 models
> hide #18.11 models
> hide #18.13-33 target m
> select add #18.6
2641 atoms, 2691 bonds, 331 residues, 4 models selected
> select add #18.9
5248 atoms, 5352 bonds, 658 residues, 4 models selected
> select add #18.10
7857 atoms, 8015 bonds, 985 residues, 4 models selected
> select add #18.12
10464 atoms, 10676 bonds, 1312 residues, 4 models selected
> ui tool show "Fit in Map"
> fitmap #18.6 inMap #101
Fit molecule FlaA1_all_sym_model F (#18.6) to map
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) using 2616 atoms
average map value = 0.1184, steps = 44
shifted from previous position = 0.984
rotated from previous position = 1.19 degrees
atoms outside contour = 1521, contour level = 0.135
Position of FlaA1_all_sym_model F (#18.6) relative to
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) coordinates:
Matrix rotation and translation
-0.45276283 0.89159691 -0.00779695 107.35982172
0.89160149 0.45280171 0.00418077 -65.66414629
0.00725801 -0.00505887 -0.99996087 375.95149118
Axis -0.52307245 -0.85228818 0.00025942
Axis point 72.85585192 0.00000000 188.24376611
Rotation angle (degrees) 179.49395240
Shift along axis -0.09465974
> fitmap #18.9 inMap #101
Fit molecule FlaA1_all_sym_model I (#18.9) to map
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) using 2616 atoms
average map value = 0.113, steps = 64
shifted from previous position = 0.765
rotated from previous position = 1.15 degrees
atoms outside contour = 1574, contour level = 0.135
Position of FlaA1_all_sym_model I (#18.9) relative to
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) coordinates:
Matrix rotation and translation
-0.44443230 0.89552366 -0.02274479 108.19986954
0.89576308 0.44453118 -0.00078471 -64.01577788
0.00940802 -0.02072269 -0.99974101 378.33720218
Axis -0.52699090 -0.84984737 0.00632827
Axis point 71.84249166 0.00000000 189.53176763
Rotation angle (degrees) 178.91608150
Shift along axis -0.22248742
> fitmap #18.10 inMap #101
Fit molecule FlaA1_all_sym_model J (#18.10) to map
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) using 2616 atoms
average map value = 0.1111, steps = 48
shifted from previous position = 0.923
rotated from previous position = 2.09 degrees
atoms outside contour = 1636, contour level = 0.135
Position of FlaA1_all_sym_model J (#18.10) relative to
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) coordinates:
Matrix rotation and translation
-0.43994971 0.89793684 -0.01239720 104.22786034
0.89770469 0.44011936 0.02052641 -66.03318606
0.02388765 -0.00209843 -0.99971246 371.71066248
Axis -0.52909639 -0.84854436 -0.00542915
Axis point 70.35919055 0.00000000 186.71943107
Rotation angle (degrees) 178.77488603
Shift along axis -1.13257079
> fitmap #18.12 inMap #101
Fit molecule FlaA1_all_sym_model L (#18.12) to map
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) using 2616 atoms
average map value = 0.1168, steps = 64
shifted from previous position = 1.25
rotated from previous position = 0.601 degrees
atoms outside contour = 1543, contour level = 0.135
Position of FlaA1_all_sym_model L (#18.12) relative to
cryosparc_P1_J2108_003_volume_map_sharp.mrc (#101) coordinates:
Matrix rotation and translation
-0.45288566 0.89146015 -0.01390695 108.60169861
0.89148698 0.45257797 -0.02059685 -61.17142510
-0.01206731 -0.02172588 -0.99969115 382.85087125
Axis -0.52302973 -0.85222379 0.01243029
Axis point 72.95080154 0.00000000 191.01372127
Rotation angle (degrees) 179.93815984
Shift along axis 0.08877289
> hide #!101 models
> select clear
> ui tool show Distances
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
14989 distances
> select subtract #19
Nothing selected
> show #19 models
> color #19 #ffb7e4ff models
> interfaces #18.6,9-10,12 & ~solvent
4 buried areas: #18.6/F #18.10/J 1347, #18.12/L #18.9/I 1325, #18.12/L #18.6/F
767, #18.9/I #18.10/J 740
> hide #19 models
> style sel sphere
Changed 628 atom styles
> show sel atoms
> hide sel atoms
> style sel ball
Changed 628 atom styles
> hide (sel-residues & (protein|nucleic)) target a
> cartoon hide sel-residues
> show (sel-residues & backbone) target ab
> color sel byhetero
> select clear
> select #18.10/J:331@O
1 atom, 1 residue, 1 model selected
> select add #18.6/F:284@O
2 atoms, 2 residues, 2 models selected
> distance #18.10/J:331@O #18.6/F:284@O
Distance between FlaA1_all_sym_model J #18.10/J LYS 331 O and
FlaA1_all_sym_model F #18.6/F ASP 284 O: 1.719Å
> show #!21 models
> show #21.1 models
> select subtract #18.6/F:284@O
1 atom, 1 residue, 1 model selected
> select add #18.6/F:285@N
2 atoms, 2 residues, 2 models selected
> distance #18.10/J:331@O #18.6/F:285@N
Distance between FlaA1_all_sym_model J #18.10/J LYS 331 O and
FlaA1_all_sym_model F #18.6/F LYS 285 N: 2.765Å
> color #18.10 #58ac5aff
> color sel byhetero
> select clear
> ui tool show Contacts
> hide #18.6,9-10,12 cartoons
> show #18.6,9-10,12 cartoons
> hide #18.6,9-10,12 atoms
> show #18.6,9-10,12 cartoons
> contacts ignoreHiddenModels true
8444 contacts
> show #19 models
> hide #!21 models
> hide #!18 models
> show #18.1-33 target m
> show #!15 models
> hide #!15 models
> hide #!18 models
> show #!55 models
> show #!55.1-5 cartoons
> hide #!55.1-5 atoms
> show #!7 models
> show #!18 models
Drag select of 2876 residues, 1078 pseudobonds
> select add #18.2
24458 atoms, 2669 bonds, 1078 pseudobonds, 3072 residues, 24 models selected
> select add #18.3
26166 atoms, 5338 bonds, 1078 pseudobonds, 3285 residues, 24 models selected
> select add #18.5
28705 atoms, 8007 bonds, 1078 pseudobonds, 3602 residues, 24 models selected
> select subtract #18.5
26089 atoms, 5338 bonds, 1078 pseudobonds, 3274 residues, 23 models selected
> select add #18.6
27121 atoms, 8007 bonds, 2952 pseudobonds, 3404 residues, 23 models selected
> select subtract #18.6
24505 atoms, 5338 bonds, 834 pseudobonds, 3076 residues, 22 models selected
> select add #18.7
26996 atoms, 8007 bonds, 834 pseudobonds, 3388 residues, 22 models selected
> select subtract #18.7
24380 atoms, 5338 bonds, 834 pseudobonds, 3060 residues, 21 models selected
> select add #18.8
26910 atoms, 8007 bonds, 834 pseudobonds, 3376 residues, 21 models selected
> select subtract #18.8
24294 atoms, 5338 bonds, 834 pseudobonds, 3048 residues, 20 models selected
> select add #18.9
24350 atoms, 8007 bonds, 2513 pseudobonds, 3056 residues, 20 models selected
> select subtract #18.9
21734 atoms, 5338 bonds, 406 pseudobonds, 2728 residues, 19 models selected
> select add #18.10
23691 atoms, 8007 bonds, 2405 pseudobonds, 2970 residues, 19 models selected
> select subtract #18.10
21075 atoms, 5338 bonds, 309 pseudobonds, 2642 residues, 18 models selected
> select add #18.11
21719 atoms, 8007 bonds, 309 pseudobonds, 2726 residues, 18 models selected
> select subtract #18.11
19103 atoms, 5338 bonds, 309 pseudobonds, 2398 residues, 17 models selected
> select add #18.12
19723 atoms, 8007 bonds, 2123 pseudobonds, 2477 residues, 17 models selected
> select subtract #18.12
17107 atoms, 5338 bonds, 2149 residues, 15 models selected
> select add #18.16
19640 atoms, 8007 bonds, 2466 residues, 15 models selected
> select subtract #18.16
17024 atoms, 5338 bonds, 2138 residues, 14 models selected
> select add #18.20
17059 atoms, 8007 bonds, 2143 residues, 14 models selected
> select subtract #18.20
14443 atoms, 5338 bonds, 1815 residues, 13 models selected
> select add #18.20
17059 atoms, 8007 bonds, 2143 residues, 14 models selected
> select add #18.21
17094 atoms, 10676 bonds, 2148 residues, 14 models selected
> select subtract #18.21
14478 atoms, 8007 bonds, 1820 residues, 13 models selected
> select add #18.21
17094 atoms, 10676 bonds, 2148 residues, 14 models selected
> select add #18.22
18580 atoms, 13345 bonds, 2332 residues, 14 models selected
> select add #18.23
19083 atoms, 16014 bonds, 2395 residues, 14 models selected
> select add #18.24
19353 atoms, 18683 bonds, 2430 residues, 14 models selected
> select add #18.25/Y:26
19361 atoms, 18690 bonds, 2431 residues, 15 models selected
> select add #18.25
21969 atoms, 21352 bonds, 2758 residues, 15 models selected
> select add #18.26
24435 atoms, 24021 bonds, 3067 residues, 15 models selected
> select subtract #18.26
21819 atoms, 21352 bonds, 2739 residues, 14 models selected
> select add #18.27
24243 atoms, 24021 bonds, 3044 residues, 14 models selected
> select subtract #18.27
21627 atoms, 21352 bonds, 2716 residues, 13 models selected
> select add #18.28
24223 atoms, 24021 bonds, 3041 residues, 13 models selected
> select subtract #18.28
21607 atoms, 21352 bonds, 2713 residues, 12 models selected
> select subtract #18.2
18991 atoms, 18683 bonds, 2385 residues, 11 models selected
> select subtract #18.3
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select subtract #18.20
13759 atoms, 13345 bonds, 1729 residues, 9 models selected
> select add #18.20
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select subtract #18.21
13759 atoms, 13345 bonds, 1729 residues, 9 models selected
> select add #18.21
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select subtract #18.22
13759 atoms, 13345 bonds, 1729 residues, 9 models selected
> select add #18.22
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select subtract #18.23
13759 atoms, 13345 bonds, 1729 residues, 9 models selected
> select add #18.23
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select subtract #18.22
13759 atoms, 13345 bonds, 1729 residues, 9 models selected
> select add #18.22
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select subtract #18.23
13759 atoms, 13345 bonds, 1729 residues, 9 models selected
> select add #18.23
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select subtract #18.24
13759 atoms, 13345 bonds, 1729 residues, 9 models selected
> select add #18.24
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select subtract #18.25
13759 atoms, 13345 bonds, 1729 residues, 9 models selected
> select add #18.25
16375 atoms, 16014 bonds, 2057 residues, 10 models selected
> select add #7
36624 atoms, 37366 bonds, 4592 residues, 17 models selected
> select subtract #7
15696 atoms, 16014 bonds, 1968 residues, 14 models selected
> hide sel atoms
> show sel cartoons
> hide #!7 models
> hide #18.20-25 target m
> show #!56 models
> hide #!55 models
> show #!57 models
> hide #18.1-19,26-33#!56.1-5#!57.1-5 atoms
> show #18.1-19,26-33#!56.1-5#!57.1-5 cartoons
> select #18.8/H:311
9 atoms, 8 bonds, 1 residue, 1 model selected
> select clear
> select #18.8/H:26
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #18.8/H:56
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #18.5/E:330
18 atoms, 16 bonds, 2 residues, 2 models selected
> select add #18.7/G:326
29 atoms, 27 bonds, 3 residues, 3 models selected
> hide #18.5 models
> select add #18.5
2636 atoms, 2688 bonds, 330 residues, 3 models selected
> select add #18.7
5241 atoms, 5346 bonds, 657 residues, 3 models selected
> select add #18.8
7848 atoms, 8007 bonds, 984 residues, 3 models selected
> hide #18.7 models
> hide #18.8 models
> select subtract #18.5
5232 atoms, 5338 bonds, 656 residues, 2 models selected
> select subtract #18.7
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> select subtract #18.8
Nothing selected
Drag select of 1760 pseudobonds, 3908 residues
> select clear
Drag select of 204 residues
> select clear
Drag select of 1760 pseudobonds, 5755 residues
> select clear
Drag select of 1760 pseudobonds, 4760 residues
> hide #18.9 models
> hide #18.10 models
> hide #18.11 models
> hide #18.12 models
> hide #18.13 models
> hide #18.14 models
> hide #18.15 models
> hide #18.16 models
> hide #18.6 models
> hide #18.4 models
> hide #18.3 models
> hide #18.2 models
> hide #18.1 models
> hide #18.29 models
> hide #18.30 models
> hide #18.31 models
> hide #18.32 models
> hide #18.33 models
> select clear
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
43973 distances
> hide #!56.3 models
> select add #18.19/S:94
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #56.5/E:73
16 atoms, 14 bonds, 2 residues, 2 models selected
> hide #!57 models
> hide #!56.4 models
> hide #!56.2 models
> hide #!56.1 models
> hide #18.18 models
> hide #18.17 models
> hide #18.26 models
> hide #18.27 models
> hide #18.28 models
> select #56.5/E:59
4 atoms, 3 bonds, 1 residue, 1 model selected
> select add #56.5/E:60
11 atoms, 9 bonds, 2 residues, 2 models selected
> select add #56.5/E:58
20 atoms, 17 bonds, 3 residues, 2 models selected
> select add #56.5/E:57
27 atoms, 23 bonds, 1 pseudobond, 4 residues, 3 models selected
> select add #18.19/S:327
35 atoms, 30 bonds, 5 residues, 3 models selected
> select add #18.19/S:328
44 atoms, 38 bonds, 6 residues, 3 models selected
> select add #18.19/S:331
53 atoms, 46 bonds, 7 residues, 3 models selected
> select add #18.19/S:330
62 atoms, 54 bonds, 8 residues, 3 models selected
> select add #18.19/S:329
71 atoms, 62 bonds, 9 residues, 3 models selected
> select subtract #18.19/S:331
62 atoms, 54 bonds, 8 residues, 3 models selected
> select add #18.19/S:331
71 atoms, 62 bonds, 9 residues, 3 models selected
> select add #18.19/S:332
79 atoms, 69 bonds, 10 residues, 3 models selected
> hide (#18.19#!56.5 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#18.19#!56.5 & sel-residues)
> show (#18.19#!56.5 & sel-residues & backbone) target ab
> style sel ball
Changed 79 atom styles
> select add #56.5/E:56
88 atoms, 77 bonds, 11 residues, 3 models selected
> select add #18.19/S:333
93 atoms, 81 bonds, 12 residues, 3 models selected
> hide (#18.19#!56.5 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#18.19#!56.5 & sel-residues)
> show (#18.19#!56.5 & sel-residues & backbone) target ab
> style sel ball
Changed 93 atom styles
> select clear
> select #56.5/E:63
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #18.19/S:314
14 atoms, 12 bonds, 2 residues, 3 models selected
Alignment identifier is 56.5/E
Alignment identifier is 18.19/S
> select clear
> select #56.5/E:59@O
1 atom, 1 residue, 1 model selected
> select add #56.5/E:59@CA
2 atoms, 1 residue, 2 models selected
> select add #56.5/E:58@O
3 atoms, 2 residues, 2 models selected
> select add #56.5/E:59@N
4 atoms, 2 residues, 2 models selected
> select add #56.5/E:58@C
5 atoms, 1 bond, 2 residues, 2 models selected
> select add #18.19/S:331@O
6 atoms, 3 residues, 3 models selected
> select add #18.19/S:331@C
7 atoms, 3 residues, 3 models selected
> select add #18.19/S:331@CA
8 atoms, 3 residues, 3 models selected
> select add #18.19/S:330@O
9 atoms, 1 pseudobond, 4 residues, 4 models selected
> select add #18.19/S:330@C
10 atoms, 1 pseudobond, 4 residues, 4 models selected
> select #56.5/E:58
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #56.5/E:58-59
13 atoms, 12 bonds, 2 residues, 1 model selected
> select clear
> select #56.5/E:58
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #56.5/E:58-59
13 atoms, 12 bonds, 2 residues, 1 model selected
> color (#!56.5 & sel) byhetero
> select clear
> select #18.19/S:331@CA
1 atom, 1 residue, 1 model selected
> select add #18.19/S:331@N
2 atoms, 1 residue, 1 model selected
> select clear
> select add #18.19/S:331@O
1 atom, 1 residue, 1 model selected
> select add #18.19/S:331@CA
2 atoms, 1 residue, 1 model selected
> select #18.19/S:330
9 atoms, 8 bonds, 1 residue, 1 model selected
> select #18.19/S:330-331
18 atoms, 17 bonds, 1 pseudobond, 2 residues, 2 models selected
> color (#18.19 & sel) byhetero
> select clear
> select #56.5/E:59@O
1 atom, 1 residue, 1 model selected
> select add #18.19/S:331@O
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:59@O #18.19/S:331@O
Distance between Asym_part_2 E #56.5/E GLY 59 O and FlaA1_all_sym_model S
#18.19/S LYS 331 O: 3.945Å
> show #!21 models
> select add #18.19/S:331@C
3 atoms, 1 bond, 2 residues, 3 models selected
Exactly two atoms must be selected!
> select subtract #18.19/S:331@O
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:59@O #18.19/S:331@C
Distance between Asym_part_2 E #56.5/E GLY 59 O and FlaA1_all_sym_model S
#18.19/S LYS 331 C: 3.850Å
> select subtract #18.19/S:331@C
1 atom, 1 residue, 2 models selected
> select add #18.19/S:331@CA
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:59@O #18.19/S:331@CA
Distance between Asym_part_2 E #56.5/E GLY 59 O and FlaA1_all_sym_model S
#18.19/S LYS 331 CA: 3.348Å
> select clear
> select add #56.5/E:59@C
1 atom, 1 residue, 1 model selected
> select add #18.19/S:331@CA
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:59@C #18.19/S:331@CA
Distance between Asym_part_2 E #56.5/E GLY 59 C and FlaA1_all_sym_model S
#18.19/S LYS 331 CA: 3.105Å
> select subtract #56.5/E:59@C
1 atom, 1 residue, 2 models selected
> select add #56.5/E:59@CA
2 atoms, 2 residues, 2 models selected
> distance #18.19/S:331@CA #56.5/E:59@CA
Distance between FlaA1_all_sym_model S #18.19/S LYS 331 CA and Asym_part_2 E
#56.5/E GLY 59 CA: 3.044Å
> select subtract #56.5/E:59@CA
1 atom, 1 residue, 2 models selected
> select add #56.5/E:58@O
2 atoms, 1 pseudobond, 2 residues, 3 models selected
> select subtract #56.5/E:58@O
1 atom, 1 pseudobond, 1 residue, 3 models selected
> select add #56.5/E:58@O
2 atoms, 1 pseudobond, 2 residues, 3 models selected
> select clear
> select #18.19/S:331@CA
1 atom, 1 residue, 1 model selected
> select add #56.5/E:58@O
2 atoms, 2 residues, 2 models selected
> distance #18.19/S:331@CA #56.5/E:58@O
Distance between FlaA1_all_sym_model S #18.19/S LYS 331 CA and Asym_part_2 E
#56.5/E GLU 58 O: 2.651Å
> select subtract #56.5/E:58@O
1 atom, 1 residue, 2 models selected
> select add #56.5/E:59@N
2 atoms, 2 residues, 2 models selected
> distance #18.19/S:331@CA #56.5/E:59@N
Distance between FlaA1_all_sym_model S #18.19/S LYS 331 CA and Asym_part_2 E
#56.5/E GLY 59 N: 3.729Å
> select clear
> select #56.5/E:58@C
1 atom, 1 residue, 1 model selected
> select add #18.19/S:331@CA
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:58@C #18.19/S:331@CA
Distance between Asym_part_2 E #56.5/E GLU 58 C and FlaA1_all_sym_model S
#18.19/S LYS 331 CA: 3.566Å
> select subtract #18.19/S:331@CA
1 atom, 1 residue, 2 models selected
> hide #21.1 models
> select #56.5/E:59@CA
1 atom, 1 residue, 1 model selected
> select add #18.19/S:327@O
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:59@CA #18.19/S:327@O
Distance between Asym_part_2 E #56.5/E GLY 59 CA and FlaA1_all_sym_model S
#18.19/S LEU 327 O: 3.870Å
> select clear
> select #56.5/E:59@CA
1 atom, 1 residue, 1 model selected
> select add #18.19/S:331@N
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:59@CA #18.19/S:331@N
Distance between Asym_part_2 E #56.5/E GLY 59 CA and FlaA1_all_sym_model S
#18.19/S LYS 331 N: 3.621Å
> select subtract #56.5/E:59@CA
1 atom, 1 residue, 2 models selected
> select add #56.5/E:58@C
2 atoms, 2 residues, 2 models selected
> distance #18.19/S:331@N #56.5/E:58@C
Distance between FlaA1_all_sym_model S #18.19/S LYS 331 N and Asym_part_2 E
#56.5/E GLU 58 C: 3.690Å
> select add #56.5/E:58@CA
3 atoms, 2 residues, 3 models selected
> select #18.19/S:331@N
1 atom, 1 residue, 1 model selected
> select add #56.5/E:58@O
2 atoms, 2 residues, 2 models selected
> distance #18.19/S:331@N #56.5/E:58@O
Distance between FlaA1_all_sym_model S #18.19/S LYS 331 N and Asym_part_2 E
#56.5/E GLU 58 O: 2.768Å
> select subtract #18.19/S:331@N
1 atom, 1 residue, 2 models selected
> select add #18.19/S:330@C
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:58@O #18.19/S:330@C
Distance between Asym_part_2 E #56.5/E GLU 58 O and FlaA1_all_sym_model S
#18.19/S GLU 330 C: 3.259Å
> select subtract #18.19/S:330@C
1 atom, 1 residue, 2 models selected
> select add #18.19/S:330@O
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:58@O #18.19/S:330@O
Distance between Asym_part_2 E #56.5/E GLU 58 O and FlaA1_all_sym_model S
#18.19/S GLU 330 O: 3.622Å
> select #56.5/E:60@N
1 atom, 1 residue, 1 model selected
> select add #18.19/S:331@CA
2 atoms, 2 residues, 3 models selected
> distance #56.5/E:60@N #18.19/S:331@CA
Distance between Asym_part_2 E #56.5/E THR 60 N and FlaA1_all_sym_model S
#18.19/S LYS 331 CA: 3.731Å
> hide #19 models
> select clear
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaA1_FlaA3_inter.png
> width 1625 height 1210 supersample 3 transparentBackground true
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaA1_FlaA3_complex.png
> width 1625 height 1210 supersample 3 transparentBackground true
> select #18.19/S:327@O
1 atom, 1 residue, 1 model selected
> select add #18.19/S:331@N
2 atoms, 2 residues, 1 model selected
> select add #18.19/S:330@O
3 atoms, 3 residues, 1 model selected
> select add #18.19/S:331@CA
4 atoms, 3 residues, 1 model selected
> select add #18.19/S:331@O
5 atoms, 3 residues, 1 model selected
> select add #18.19/S:331@C
6 atoms, 3 residues, 1 model selected
> select clear
> select #56.5/E:58@C
1 atom, 1 residue, 1 model selected
> select add #56.5/E:59@N
2 atoms, 2 residues, 2 models selected
> select add #56.5/E:59@CA
3 atoms, 2 residues, 2 models selected
> select add #56.5/E:59@C
4 atoms, 2 residues, 2 models selected
> select add #56.5/E:59@O
5 atoms, 2 residues, 2 models selected
> select add #56.5/E:58@O
6 atoms, 2 residues, 2 models selected
> select clear
> show #!56.4 models
> show #!56.1 models
> show #18.19#!56.1,4-5 cartoons
> hide #18.19#!56.1,4-5 atoms
> hide #!21 models
> hide #!18 models
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
5382 distances
> show #19 models
> show #3 models
> hide #3 models
> show #!2 models
> hide #!2 models
> ui tool show "Find Cavities"
pyKVFinder module not installed; fetching from PyPi repository...
Errors may have occurred when running pip:
pip standard error:
\---
ERROR: pip's dependency resolver does not currently take into account all the
packages that are installed. This behaviour is the source of the following
dependency conflicts.
chimerax-bundlebuilder 1.4.0 requires numpy==1.26.4, but you have numpy 2.2.6
which is incompatible.
nptyping 2.5.0 requires numpy=1.20.0; python_version >= "3.8", but you
have numpy 2.2.6 which is incompatible.
\---
pip standard output:
\---
\---
> kvfinder #56.1,4-5
7 cavities found for Asym_part_2 A #56.1
Asym_part_2 A Cavities
---
ID | | Volume | Area | Points
56.1.2.4 | | 301.97 | 202.77 | 1398
56.1.2.7 | | 67.61 | 83.82 | 313
56.1.2.3 | | 29.81 | 37.89 | 138
56.1.2.5 | | 18.36 | 31.06 | 85
56.1.2.1 | | 17.28 | 36.68 | 80
56.1.2.6 | | 9.29 | 15.23 | 43
56.1.2.2 | | 5.62 | 11.48 | 26
Populating font family aliases took 118 ms. Replace uses of missing font
family "Times" with one that exists to avoid this cost.
5 cavities found for Asym_part_2 D #56.4
Asym_part_2 D Cavities
---
ID | | Volume | Area | Points
56.4.2.2 | | 288.36 | 198.24 | 1335
56.4.2.1 | | 59.62 | 75.31 | 276
56.4.2.4 | | 24.84 | 29.18 | 115
56.4.2.3 | | 16.63 | 22.67 | 77
56.4.2.5 | | 5.18 | 10.2 | 24
12 cavities found for Asym_part_2 E #56.5
Asym_part_2 E Cavities
---
ID | | Volume | Area | Points
56.5.2.3 | | 52.06 | 67.91 | 241
56.5.2.9 | | 34.78 | 41.19 | 161
56.5.2.11 | | 31.32 | 43.64 | 145
56.5.2.2 | | 19.66 | 31.58 | 91
56.5.2.5 | | 16.42 | 28.99 | 76
56.5.2.6 | | 14.26 | 27.91 | 66
56.5.2.4 | | 9.94 | 20.08 | 46
56.5.2.7 | | 9.72 | 20.35 | 45
56.5.2.1 | | 9.07 | 17.52 | 42
56.5.2.12 | | 8.64 | 19.18 | 40
56.5.2.10 | | 7.56 | 16.2 | 35
56.5.2.8 | | 5.18 | 9.17 | 24
> show #56.1.2.1-7#56.4.2.1-5#56.5.2.1-12#!56.1,4-5 surfaces
> hide #56.1.2.1-7#56.4.2.1-5#56.5.2.1-12#!56.1,4-5 surfaces
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Pallidum_Uconn/250627Tp_in_vitro_SPA/cryosparc_P1_J2127_014_volume_mask_refine.mrc
Opened cryosparc_P1_J2127_014_volume_mask_refine.mrc as #16, grid size
512,512,512, pixel 0.534, shown at level 1, step 2, values float32
> hide #19 models
> hide #!56 models
Can not turn on clipping since there are no models to clip
> view
> hide #!16 models
> show #!16 models
> volume #16 step 1
> volume #16 level 0.914
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Pallidum_Uconn/250627Tp_in_vitro_SPA/Tp_mask_cylinder.mrc
> models #16
> close #16
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Pallidum_Uconn/250627Tp_in_vitro_SPA/Tp_mask_cylinder.mrc
Opened Tp_mask_cylinder.mrc as #16, grid size 512,512,512, pixel 0.534, shown
at level 1, step 2, values float32
> volume #16 step 1
> volume #16 level 1
> volume #16 level 0.1637
> close #16
> show #!56 models
> hide #56.1.2.1-7#56.4.2.1-5#56.5.2.1-12#!56.1,4-5 surfaces
> show #56.1.2.1-7#56.4.2.1-5#56.5.2.1-12#!56.1,4-5 cartoons
> hide #56.1.2.1-7#56.4.2.1-5#56.5.2.1-12#!56.1,4-5 atoms
> ui tool show ViewDockX
No suitable models found for ViewDockX
> ui tool show Contacts
> contacts distanceOnly 4.0 ignoreHiddenModels true
42582 distances
> show #19 models
> show #56.1.2.1-7#56.4.2.1-5#56.5.2.1-12#!56.1,4-5 surfaces
> hide #19 models
> hide #!56.5 models
> mlp #56.1.2.1-7#56.4.2.1-5#!56.1,4
Map values for surface "Asym_part_2 D_D SES surface": minimum -27.89, mean
-4.555, maximum 22.89
Map values for surface "Asym_part_2 A_A SES surface": minimum -28.01, mean
-4.585, maximum 22.37
To also show corresponding color key, enter the above mlp command and add key
true
> coulombic #56.1.2.1-7#56.4.2.1-5#!56.1,4
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z77] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z78] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z79] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z80] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z81] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z82] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z83] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z84] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z85] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z86] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z87] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z88] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z89] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z90] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z91] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z92] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z93] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z94] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z95] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z96] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z97] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z98] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z99] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z100] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z101] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z102] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z103] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z104] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z105] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z106] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z107] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z108] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z109] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z110] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z111] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z112] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z113] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z114] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z115] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z116] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z117] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z118] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z119] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z120] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z121] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z122] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z123] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z124] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z125] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z126] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z127] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z128] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z129] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z130] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z131] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z132] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z133] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z134] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z135] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z136] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z137] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z138] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z139] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z140] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z141] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z142] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z143] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z144] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z145] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z146] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z147] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z148] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z149] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z150] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z151] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z152] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z153] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z154] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z155] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z156] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z157] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z158] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z159] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z160] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z161] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z162] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z163] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z164] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z165] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z166] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z167] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z168] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z169] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z170] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z171] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z172] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z173] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z174] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z175] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z176] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z177] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z178] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z179] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z180] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z181] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z182] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z183] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z184] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z185] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z186] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z187] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z188] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z189] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z190] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z191] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z192] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z193] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z194] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z195] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z196] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z197] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z198] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z199] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z200] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z201] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z202] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z203] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z204] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z205] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z206] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z207] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z208] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z209] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z210] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z211] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z212] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z213] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z214] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z215] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z216] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z217] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z218] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z219] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z220] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z221] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z222] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z223] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z224] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z225] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z226] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z227] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z228] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z229] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z230] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z231] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z232] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z233] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z234] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z235] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z236] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z237] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z238] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z239] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z240] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z241] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z242] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z243] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z244] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z245] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z246] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z247] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z248] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z249] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z250] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z251] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z252] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z253] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z254] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z255] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z256] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z257] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z258] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z259] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z260] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z261] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z262] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z263] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z264] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z265] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z266] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z267] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z268] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z269] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z270] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z271] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z272] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z273] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z274] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z275] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z276] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z277] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z278] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z279] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z280] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z281] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z282] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z283] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z284] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z285] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z286] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z287] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z288] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z289] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z290] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z291] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z292] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z293] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z294] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z295] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z296] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z297] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z298] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z299] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z300] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z301] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z302] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z303] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z304] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z305] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z306] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z307] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z308] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z309] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z310] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z311] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z312] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z77] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z78] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z79] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z80] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z81] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z82] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z83] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z84] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z77] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z78] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z79] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z80] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z81] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z82] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z83] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z84] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z85] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z86] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z87] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z88] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z89] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z90] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z91] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z92] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z93] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z94] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z95] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z96] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z97] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z98] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z99] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z100] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z101] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z102] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z103] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z104] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z105] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z106] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z107] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z108] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z109] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z110] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z111] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z112] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z113] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z114] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z115] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z116] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z117] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z118] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z119] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z120] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z121] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z122] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z123] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z124] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z125] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z126] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z127] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z128] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z129] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z130] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z131] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z132] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z133] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z134] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z135] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z136] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z137] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z138] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z139] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z140] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z141] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z142] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z143] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z144] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z145] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z146] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z147] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z148] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z149] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z150] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z151] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z152] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z153] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z154] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z155] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z156] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z157] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z158] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z159] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z160] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z161] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z162] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z163] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z164] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z165] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z166] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z167] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z168] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z169] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z170] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z171] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z172] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z173] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z174] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z175] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z176] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z177] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z178] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z179] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z180] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z181] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z182] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z183] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z184] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z185] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z186] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z187] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z188] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z189] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z190] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z191] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z192] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z193] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z194] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z195] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z196] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z197] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z198] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z199] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z200] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z201] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z202] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z203] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z204] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z205] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z206] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z207] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z208] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z209] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z210] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z211] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z212] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z213] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z214] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z215] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z216] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z217] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z218] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z219] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z220] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z221] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z222] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z223] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z224] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z225] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z226] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z227] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z228] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z229] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z230] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z231] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z232] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z233] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z234] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z235] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z236] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z237] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z238] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z239] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z240] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z241] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z242] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z243] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z244] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z245] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z246] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z247] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z248] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z249] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z250] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z251] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z252] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z253] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z254] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z255] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z256] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z257] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z258] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z259] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z260] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z261] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z262] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z263] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z264] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z265] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z266] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z267] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z268] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z269] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z270] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z271] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z272] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z273] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z274] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z275] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z276] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z277] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z278] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z279] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z280] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z281] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z282] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z283] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z284] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z285] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z286] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z287] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z288] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z289] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z290] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z291] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z292] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z293] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z294] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z295] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z296] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z297] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z298] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z299] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z300] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z301] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z302] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z303] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z304] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z305] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z306] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z307] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z308] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z309] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z310] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z311] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z312] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z313] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z314] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z315] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z316] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z317] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z318] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z319] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z320] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z321] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z322] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z323] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z324] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z325] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z326] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z327] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z328] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z329] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z330] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z331] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z332] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z333] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z334] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z335] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z336] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z337] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z338] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z339] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z340] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z341] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z342] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z343] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z344] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z345] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z346] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z347] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z348] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z349] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z350] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z351] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z352] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z353] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z354] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z355] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z356] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z357] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z358] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z359] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z360] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z361] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z362] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z363] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z364] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z365] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z366] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z367] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z368] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z369] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z370] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z371] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z372] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z373] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z374] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z375] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z376] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z377] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z378] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z379] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z380] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z381] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z382] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z383] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z384] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z385] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z386] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z387] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z388] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z389] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z390] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z391] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z392] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z393] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z394] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z395] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z396] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z397] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z398] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z399] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z400] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z401] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z402] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z403] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z404] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z405] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z406] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z407] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z408] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z409] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z410] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z411] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z412] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z413] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z414] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z415] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z416] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z417] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z418] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z419] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z420] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z421] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z422] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z423] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z424] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z425] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z426] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z427] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z428] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z429] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z430] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z431] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z432] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z433] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z434] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z435] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z436] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z437] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z438] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z439] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z440] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z441] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z442] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z443] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z444] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z445] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z446] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z447] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z448] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z449] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z450] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z451] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z452] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z453] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z454] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z455] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z456] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z457] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z458] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z459] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z460] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z461] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z462] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z463] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z464] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z465] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z466] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z467] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z468] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z469] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z470] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z471] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z472] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z473] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z474] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z475] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z476] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z477] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z478] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z479] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z480] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z481] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z482] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z483] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z484] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z485] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z486] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z487] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z488] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z489] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z490] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z491] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z492] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z493] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z494] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z495] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z496] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z497] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z498] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z499] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z500] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z501] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z502] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z503] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z504] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z505] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z506] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z507] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z508] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z509] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z510] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z511] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z512] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z513] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z514] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z515] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z516] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z517] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z518] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z519] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z520] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z521] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z522] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z523] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z524] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z525] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z526] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z527] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z528] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z529] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z530] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z531] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z532] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z533] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z534] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z535] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z536] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z537] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z538] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z539] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z540] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z541] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z542] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z543] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z544] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z545] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z546] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z547] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z548] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z549] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z550] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z551] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z552] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z553] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z554] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z555] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z556] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z557] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z558] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z559] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z560] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z561] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z562] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z563] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z564] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z565] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z566] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z567] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z568] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z569] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z570] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z571] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z572] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z573] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z574] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z575] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z576] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z577] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z578] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z579] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z580] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z581] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z582] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z583] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z584] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z585] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z586] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z587] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z588] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z589] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z590] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z591] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z592] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z593] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z594] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z595] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z596] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z597] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z598] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z599] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z600] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z601] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z602] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z603] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z604] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z605] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z606] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z607] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z608] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z609] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z610] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z611] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z612] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z613] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z614] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z615] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z616] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z617] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z618] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z619] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z620] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z621] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z622] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z623] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z624] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z625] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z626] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z627] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z628] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z629] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z630] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z631] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z632] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z633] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z634] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z635] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z636] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z637] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z638] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z639] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z640] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z641] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z642] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z643] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z644] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z645] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z646] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z647] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z648] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z649] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z650] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z651] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z652] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z653] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z654] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z655] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z656] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z657] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z658] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z659] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z660] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z661] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z662] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z663] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z664] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z665] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z666] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z667] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z668] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z669] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z670] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z671] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z672] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z673] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z674] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z675] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z676] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z677] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z678] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z679] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z680] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z681] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z682] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z683] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z684] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z685] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z686] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z687] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z688] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z689] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z690] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z691] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z692] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z693] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z694] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z695] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z696] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z697] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z698] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z699] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z700] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z701] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z702] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z703] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z704] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z705] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z706] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z707] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z708] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z709] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z710] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z711] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z712] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z713] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z714] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z715] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z716] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z717] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z718] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z719] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z720] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z721] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z722] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z723] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z724] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z725] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z726] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z727] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z728] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z729] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z730] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z731] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z732] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z733] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z734] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z735] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z736] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z737] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z738] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z739] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z740] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z741] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z742] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z743] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z744] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z745] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z746] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z747] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z748] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z749] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z750] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z751] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z752] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z753] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z754] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z755] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z756] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z757] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z758] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z759] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z760] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z761] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z762] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z763] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z764] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z765] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z766] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z767] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z768] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z769] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z770] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z771] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z772] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z773] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z774] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z775] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z776] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z777] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z778] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z779] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z780] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z781] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z782] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z783] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z784] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z785] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z786] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z787] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z788] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z789] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z790] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z791] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z792] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z793] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z794] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z795] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z796] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z797] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z798] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z799] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z800] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z801] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z802] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z803] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z804] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z805] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z806] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z807] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z808] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z809] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z810] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z811] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z812] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z813] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z814] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z815] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z816] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z817] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z818] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z819] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z820] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z821] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z822] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z823] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z824] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z825] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z826] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z827] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z828] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z829] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z830] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z831] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z832] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z833] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z834] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z835] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z836] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z837] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z838] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z839] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z840] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z841] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z842] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z843] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z844] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z845] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z846] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z847] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z848] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z849] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z850] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z851] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z852] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z853] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z854] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z855] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z856] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z857] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z858] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z859] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z860] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z861] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z862] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z863] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z864] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z865] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z866] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z867] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z868] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z869] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z870] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z871] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z872] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z873] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z874] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z875] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z876] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z877] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z878] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z879] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z880] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z881] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z882] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z883] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z884] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z885] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z886] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z887] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z888] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z889] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z890] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z891] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z892] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z893] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z894] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z895] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z896] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z897] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z898] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z899] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z900] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z901] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z902] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z903] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z904] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z905] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z906] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z907] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z908] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z909] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z910] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z911] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z912] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z913] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z914] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z915] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z916] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z917] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z918] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z919] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z920] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z921] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z922] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z923] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z924] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z925] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z926] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z927] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z928] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z929] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z930] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z931] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z932] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z933] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z934] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z935] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z936] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z937] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z938] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z939] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z940] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z941] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z942] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z943] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z944] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z945] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z946] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z947] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z948] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z949] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z950] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z951] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z952] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z953] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z954] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z955] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z956] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z957] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z958] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z959] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z960] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z961] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z962] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z963] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z964] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z965] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z966] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z967] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z968] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z969] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z970] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z971] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z972] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z973] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z974] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z975] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z976] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z977] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z978] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z979] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z980] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z981] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z982] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z983] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z984] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z985] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z986] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z987] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z988] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z989] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z990] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z991] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z992] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z993] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z994] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z995] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z996] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z997] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z998] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z999] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1000] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1001] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1002] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1003] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1004] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1005] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1006] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1007] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1008] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1009] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1010] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1011] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1012] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1013] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1014] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1015] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1016] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1017] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1018] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1019] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1020] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1021] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1022] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1023] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1024] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1025] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1026] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1027] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1028] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1029] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1030] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1031] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1032] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1033] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1034] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1035] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1036] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1037] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1038] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1039] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1040] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1041] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1042] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1043] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1044] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1045] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1046] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1047] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1048] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1049] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1050] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1051] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1052] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1053] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1054] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1055] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1056] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1057] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1058] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1059] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1060] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1061] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1062] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1063] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1064] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1065] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1066] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1067] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1068] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1069] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1070] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1071] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1072] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1073] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1074] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1075] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1076] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1077] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1078] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1079] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1080] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1081] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1082] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1083] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1084] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1085] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1086] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1087] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1088] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1089] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1090] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1091] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1092] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1093] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1094] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1095] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1096] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1097] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1098] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1099] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1100] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1101] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1102] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1103] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1104] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1105] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1106] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1107] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1108] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1109] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1110] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1111] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1112] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1113] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1114] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1115] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1116] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1117] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1118] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1119] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1120] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1121] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1122] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1123] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1124] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1125] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1126] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1127] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1128] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1129] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1130] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1131] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1132] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1133] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1134] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1135] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1136] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1137] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1138] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1139] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1140] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1141] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1142] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1143] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1144] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1145] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1146] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1147] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1148] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1149] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1150] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1151] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1152] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1153] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1154] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1155] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1156] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1157] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1158] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1159] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1160] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1161] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1162] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1163] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1164] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1165] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1166] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1167] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1168] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1169] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1170] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1171] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1172] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1173] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1174] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1175] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1176] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1177] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1178] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1179] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1180] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1181] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1182] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1183] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1184] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1185] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1186] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1187] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1188] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1189] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1190] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1191] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1192] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1193] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1194] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1195] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1196] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1197] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1198] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1199] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1200] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1201] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1202] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1203] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1204] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1205] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1206] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1207] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1208] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1209] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1210] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1211] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1212] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1213] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1214] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1215] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1216] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1217] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1218] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1219] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1220] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1221] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1222] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1223] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1224] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1225] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1226] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1227] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1228] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1229] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1230] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1231] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1232] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1233] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1234] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1235] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1236] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1237] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1238] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1239] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1240] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1241] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1242] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1243] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1244] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1245] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1246] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1247] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1248] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1249] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1250] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1251] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1252] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1253] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1254] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1255] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1256] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1257] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1258] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1259] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1260] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1261] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1262] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1263] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1264] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1265] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1266] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1267] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1268] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1269] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1270] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1271] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1272] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1273] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1274] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1275] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1276] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1277] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1278] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1279] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1280] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1281] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1282] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1283] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1284] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1285] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1286] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1287] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1288] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1289] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1290] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1291] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1292] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1293] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1294] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1295] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1296] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1297] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1298] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1299] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1300] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1301] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1302] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1303] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1304] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1305] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1306] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1307] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1308] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1309] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1310] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1311] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1312] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1313] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1314] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1315] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1316] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1317] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1318] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1319] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1320] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1321] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1322] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1323] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1324] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1325] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1326] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1327] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1328] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1329] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1330] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1331] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1332] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1333] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1334] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z77] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z78] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z79] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z80] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z81] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z82] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z83] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z84] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z85] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z86] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z87] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z88] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z89] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z90] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z91] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z92] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z93] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z94] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z95] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z96] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z97] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z98] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z99] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z100] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z101] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z102] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z103] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z104] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z105] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z106] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z107] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z108] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z109] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z110] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z111] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z112] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z113] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z114] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z77] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z78] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z79] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z77] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z78] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z79] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z80] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z81] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z82] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z83] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z84] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z85] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z86] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z87] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z88] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z89] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z90] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z91] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z92] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z93] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z94] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z95] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z96] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z97] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z98] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z99] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z100] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z101] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z102] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z103] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z104] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z105] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z106] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z107] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z108] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z109] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z110] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z111] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z112] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z113] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z114] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z115] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z116] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z117] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z118] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z119] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z120] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z121] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z122] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z123] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z124] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z125] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z126] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z127] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z128] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z129] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z130] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z131] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z132] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z133] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z134] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z135] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z136] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z137] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z138] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z139] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z140] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z141] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z142] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z143] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z144] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z145] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z146] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z147] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z148] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z149] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z150] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z151] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z152] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z153] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z154] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z155] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z156] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z157] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z158] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z159] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z160] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z161] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z162] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z163] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z164] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z165] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z166] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z167] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z168] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z169] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z170] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z171] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z172] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z173] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z174] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z175] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z176] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z177] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z178] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z179] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z180] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z181] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z182] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z183] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z184] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z185] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z186] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z187] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z188] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z189] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z190] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z191] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z192] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z193] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z194] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z195] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z196] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z197] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z198] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z199] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z200] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z201] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z202] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z203] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z204] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z205] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z206] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z207] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z208] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z209] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z210] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z211] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z212] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z213] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z214] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z215] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z216] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z217] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z218] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z219] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z220] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z221] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z222] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z223] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z224] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z225] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z226] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z227] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z228] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z229] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z230] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z231] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z232] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z233] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z234] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z235] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z236] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z237] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z238] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z239] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z240] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z241] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z242] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z243] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z244] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z245] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z246] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z247] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z248] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z249] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z250] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z251] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z252] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z253] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z254] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z255] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z256] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z257] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z258] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z259] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z260] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z261] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z262] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z263] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z264] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z265] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z266] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z267] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z268] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z269] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z270] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z271] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z272] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z273] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z274] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z275] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z77] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z78] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z79] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z80] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z81] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z82] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z83] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z84] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z85] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z86] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z87] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z88] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z89] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z90] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z91] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z92] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z93] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z94] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z95] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z96] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z97] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z98] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z99] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z100] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z101] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z102] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z103] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z104] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z105] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z106] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z107] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z108] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z109] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z110] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z111] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z112] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z113] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z114] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z115] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z116] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z117] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z118] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z119] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z120] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z121] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z122] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z123] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z124] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z125] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z126] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z127] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z128] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z129] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z130] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z131] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z132] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z133] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z134] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z135] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z136] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z137] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z138] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z139] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z140] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z141] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z142] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z143] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z144] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z145] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z146] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z147] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z148] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z149] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z150] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z151] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z152] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z153] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z154] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z155] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z156] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z157] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z158] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z159] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z160] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z161] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z162] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z163] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z164] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z165] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z166] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z167] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z168] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z169] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z170] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z171] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z172] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z173] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z174] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z175] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z176] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z177] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z178] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z179] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z180] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z181] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z182] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z183] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z184] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z185] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z186] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z187] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z188] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z189] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z190] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z191] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z192] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z193] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z194] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z195] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z196] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z197] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z198] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z199] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z200] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z201] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z202] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z203] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z204] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z205] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z206] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z207] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z208] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z209] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z210] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z211] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z212] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z213] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z214] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z215] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z216] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z217] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z218] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z219] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z220] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z221] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z222] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z223] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z224] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z225] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z226] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z227] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z228] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z229] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z230] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z231] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z232] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z233] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z234] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z235] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z236] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z237] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z238] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z239] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z240] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z241] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z242] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z243] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z244] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z245] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z246] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z247] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z248] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z249] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z250] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z251] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z252] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z253] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z254] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z255] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z256] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z257] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z258] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z259] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z260] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z261] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z262] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z263] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z264] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z265] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z266] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z267] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z268] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z269] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z270] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z271] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z272] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z273] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z274] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z275] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z276] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z277] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z278] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z279] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z280] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z281] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z282] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z283] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z284] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z285] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z286] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z287] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z288] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z289] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z290] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z291] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z292] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z293] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z294] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z295] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z296] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z297] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z298] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z299] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z300] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z301] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z302] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z303] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z304] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z305] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z306] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z307] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z308] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z309] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z310] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z311] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z312] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z313] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z314] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z315] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z316] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z317] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z318] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z319] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z320] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z321] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z322] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z323] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z324] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z325] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z326] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z327] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z328] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z329] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z330] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z331] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z332] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z333] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z334] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z335] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z336] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z337] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z338] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z339] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z340] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z341] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z342] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z343] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z344] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z345] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z346] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z347] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z348] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z349] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z350] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z351] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z352] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z353] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z354] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z355] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z356] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z357] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z358] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z359] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z360] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z361] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z362] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z363] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z364] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z365] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z366] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z367] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z368] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z369] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z370] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z371] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z372] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z373] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z374] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z375] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z376] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z377] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z378] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z379] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z380] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z381] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z382] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z383] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z384] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z385] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z386] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z387] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z388] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z389] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z390] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z391] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z392] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z393] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z394] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z395] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z396] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z397] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z398] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z399] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z400] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z401] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z402] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z403] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z404] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z405] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z406] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z407] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z408] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z409] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z410] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z411] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z412] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z413] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z414] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z415] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z416] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z417] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z418] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z419] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z420] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z421] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z422] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z423] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z424] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z425] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z426] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z427] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z428] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z429] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z430] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z431] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z432] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z433] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z434] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z435] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z436] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z437] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z438] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z439] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z440] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z441] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z442] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z443] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z444] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z445] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z446] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z447] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z448] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z449] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z450] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z451] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z452] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z453] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z454] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z455] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z456] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z457] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z458] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z459] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z460] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z461] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z462] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z463] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z464] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z465] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z466] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z467] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z468] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z469] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z470] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z471] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z472] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z473] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z474] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z475] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z476] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z477] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z478] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z479] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z480] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z481] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z482] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z483] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z484] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z485] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z486] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z487] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z488] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z489] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z490] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z491] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z492] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z493] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z494] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z495] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z496] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z497] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z498] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z499] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z500] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z501] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z502] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z503] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z504] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z505] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z506] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z507] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z508] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z509] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z510] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z511] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z512] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z513] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z514] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z515] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z516] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z517] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z518] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z519] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z520] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z521] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z522] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z523] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z524] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z525] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z526] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z527] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z528] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z529] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z530] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z531] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z532] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z533] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z534] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z535] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z536] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z537] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z538] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z539] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z540] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z541] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z542] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z543] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z544] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z545] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z546] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z547] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z548] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z549] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z550] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z551] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z552] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z553] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z554] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z555] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z556] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z557] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z558] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z559] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z560] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z561] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z562] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z563] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z564] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z565] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z566] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z567] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z568] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z569] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z570] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z571] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z572] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z573] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z574] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z575] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z576] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z577] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z578] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z579] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z580] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z581] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z582] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z583] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z584] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z585] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z586] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z587] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z588] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z589] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z590] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z591] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z592] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z593] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z594] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z595] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z596] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z597] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z598] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z599] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z600] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z601] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z602] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z603] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z604] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z605] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z606] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z607] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z608] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z609] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z610] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z611] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z612] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z613] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z614] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z615] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z616] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z617] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z618] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z619] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z620] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z621] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z622] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z623] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z624] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z625] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z626] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z627] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z628] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z629] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z630] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z631] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z632] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z633] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z634] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z635] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z636] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z637] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z638] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z639] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z640] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z641] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z642] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z643] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z644] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z645] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z646] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z647] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z648] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z649] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z650] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z651] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z652] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z653] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z654] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z655] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z656] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z657] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z658] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z659] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z660] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z661] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z662] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z663] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z664] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z665] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z666] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z667] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z668] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z669] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z670] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z671] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z672] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z673] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z674] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z675] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z676] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z677] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z678] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z679] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z680] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z681] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z682] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z683] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z684] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z685] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z686] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z687] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z688] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z689] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z690] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z691] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z692] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z693] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z694] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z695] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z696] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z697] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z698] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z699] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z700] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z701] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z702] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z703] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z704] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z705] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z706] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z707] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z708] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z709] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z710] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z711] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z712] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z713] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z714] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z715] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z716] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z717] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z718] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z719] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z720] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z721] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z722] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z723] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z724] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z725] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z726] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z727] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z728] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z729] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z730] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z731] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z732] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z733] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z734] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z735] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z736] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z737] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z738] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z739] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z740] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z741] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z742] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z743] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z744] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z745] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z746] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z747] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z748] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z749] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z750] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z751] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z752] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z753] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z754] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z755] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z756] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z757] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z758] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z759] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z760] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z761] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z762] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z763] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z764] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z765] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z766] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z767] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z768] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z769] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z770] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z771] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z772] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z773] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z774] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z775] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z776] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z777] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z778] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z779] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z780] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z781] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z782] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z783] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z784] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z785] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z786] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z787] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z788] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z789] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z790] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z791] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z792] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z793] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z794] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z795] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z796] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z797] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z798] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z799] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z800] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z801] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z802] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z803] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z804] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z805] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z806] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z807] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z808] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z809] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z810] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z811] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z812] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z813] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z814] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z815] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z816] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z817] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z818] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z819] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z820] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z821] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z822] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z823] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z824] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z825] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z826] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z827] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z828] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z829] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z830] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z831] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z832] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z833] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z834] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z835] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z836] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z837] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z838] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z839] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z840] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z841] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z842] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z843] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z844] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z845] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z846] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z847] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z848] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z849] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z850] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z851] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z852] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z853] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z854] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z855] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z856] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z857] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z858] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z859] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z860] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z861] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z862] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z863] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z864] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z865] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z866] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z867] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z868] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z869] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z870] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z871] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z872] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z873] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z874] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z875] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z876] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z877] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z878] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z879] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z880] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z881] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z882] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z883] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z884] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z885] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z886] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z887] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z888] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z889] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z890] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z891] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z892] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z893] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z894] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z895] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z896] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z897] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z898] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z899] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z900] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z901] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z902] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z903] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z904] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z905] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z906] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z907] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z908] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z909] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z910] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z911] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z912] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z913] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z914] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z915] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z916] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z917] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z918] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z919] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z920] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z921] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z922] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z923] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z924] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z925] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z926] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z927] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z928] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z929] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z930] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z931] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z932] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z933] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z934] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z935] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z936] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z937] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z938] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z939] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z940] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z941] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z942] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z943] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z944] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z945] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z946] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z947] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z948] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z949] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z950] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z951] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z952] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z953] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z954] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z955] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z956] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z957] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z958] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z959] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z960] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z961] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z962] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z963] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z964] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z965] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z966] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z967] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z968] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z969] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z970] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z971] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z972] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z973] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z974] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z975] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z976] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z977] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z978] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z979] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z980] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z981] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z982] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z983] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z984] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z985] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z986] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z987] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z988] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z989] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z990] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z991] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z992] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z993] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z994] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z995] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z996] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z997] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z998] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z999] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1000] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1001] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1002] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1003] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1004] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1005] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1006] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1007] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1008] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1009] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1010] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1011] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1012] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1013] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1014] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1015] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1016] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1017] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1018] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1019] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1020] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1021] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1022] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1023] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1024] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1025] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1026] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1027] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1028] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1029] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1030] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1031] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1032] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1033] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1034] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1035] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1036] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1037] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1038] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1039] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1040] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1041] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1042] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1043] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1044] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1045] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1046] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1047] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1048] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1049] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1050] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1051] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1052] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1053] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1054] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1055] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1056] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1057] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1058] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1059] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1060] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1061] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1062] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1063] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1064] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1065] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1066] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1067] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1068] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1069] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1070] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1071] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1072] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1073] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1074] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1075] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1076] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1077] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1078] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1079] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1080] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1081] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1082] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1083] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1084] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1085] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1086] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1087] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1088] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1089] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1090] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1091] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1092] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1093] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1094] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1095] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1096] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1097] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1098] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1099] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1100] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1101] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1102] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1103] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1104] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1105] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1106] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1107] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1108] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1109] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1110] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1111] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1112] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1113] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1114] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1115] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1116] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1117] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1118] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1119] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1120] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1121] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1122] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1123] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1124] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1125] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1126] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1127] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1128] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1129] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1130] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1131] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1132] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1133] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1134] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1135] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1136] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1137] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1138] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1139] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1140] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1141] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1142] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1143] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1144] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1145] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1146] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1147] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1148] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1149] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1150] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1151] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1152] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1153] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1154] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1155] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1156] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1157] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1158] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1159] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1160] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1161] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1162] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1163] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1164] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1165] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1166] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1167] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1168] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1169] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1170] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1171] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1172] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1173] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1174] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1175] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1176] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1177] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1178] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1179] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1180] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1181] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1182] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1183] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1184] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1185] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1186] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1187] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1188] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1189] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1190] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1191] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1192] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1193] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1194] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1195] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1196] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1197] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1198] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1199] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1200] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1201] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1202] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1203] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1204] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1205] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1206] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1207] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1208] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1209] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1210] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1211] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1212] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1213] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1214] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1215] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1216] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1217] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1218] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1219] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1220] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1221] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1222] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1223] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1224] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1225] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1226] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1227] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1228] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1229] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1230] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1231] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1232] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1233] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1234] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1235] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1236] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1237] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1238] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1239] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1240] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1241] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1242] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1243] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1244] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1245] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1246] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1247] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1248] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1249] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1250] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1251] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1252] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1253] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1254] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1255] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1256] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1257] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1258] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1259] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1260] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1261] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1262] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1263] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1264] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1265] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1266] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1267] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1268] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1269] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1270] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1271] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1272] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1273] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1274] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1275] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1276] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1277] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1278] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1279] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1280] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1281] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1282] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1283] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1284] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1285] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1286] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1287] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1288] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1289] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1290] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1291] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1292] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1293] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1294] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1295] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1296] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1297] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1298] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1299] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1300] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1301] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1302] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1303] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1304] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1305] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1306] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1307] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1308] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1309] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1310] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1311] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1312] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1313] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1314] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1315] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1316] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1317] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1318] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1319] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1320] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1321] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1322] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1323] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1324] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1325] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1326] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1327] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1328] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1329] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1330] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1331] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1332] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1333] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1334] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1335] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1336] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1337] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1338] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1339] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1340] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1341] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1342] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1343] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1344] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1345] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1346] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1347] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1348] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1349] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1350] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1351] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1352] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1353] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1354] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1355] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1356] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1357] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1358] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1359] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1360] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1361] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1362] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1363] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1364] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1365] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1366] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1367] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1368] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1369] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1370] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1371] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1372] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1373] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1374] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1375] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1376] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1377] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1378] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1379] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1380] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1381] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1382] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1383] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1384] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1385] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1386] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1387] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1388] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1389] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1390] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1391] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1392] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1393] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1394] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1395] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1396] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1397] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z77] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z78] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z79] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z80] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z81] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z82] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z83] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z84] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z85] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z86] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z87] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z88] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z89] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z90] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z91] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z92] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z93] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z94] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z95] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z96] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z97] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z98] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z99] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z100] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z101] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z102] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z103] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z104] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z105] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z106] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z107] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z108] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z109] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z110] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z111] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z112] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z113] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z114] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z115] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z116] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z117] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z118] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z119] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z120] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z121] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z122] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z123] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z124] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z125] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z126] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z127] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z128] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z129] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z130] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z131] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z132] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z133] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z134] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z135] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z136] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z137] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z24] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z25] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z26] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z27] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z28] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z29] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z30] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z31] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z32] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z33] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z34] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z35] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z36] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z37] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z38] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z39] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z40] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z41] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z42] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z43] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z44] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z45] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z46] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z47] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z48] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z49] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z50] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z51] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z52] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z53] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z54] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z55] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z56] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z57] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z58] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z59] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z60] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z61] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z62] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z63] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z64] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z65] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z66] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z67] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z68] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z69] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z70] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z71] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z72] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z73] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z74] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z75] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z76] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Using Amber 20 recommended default charges and atom types for standard
residues
Assigning partial charges to residue CAV[Z0] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z1] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z2] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z3] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z4] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z5] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z6] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z7] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z8] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z9] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z10] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z11] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z12] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z13] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z14] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z15] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z16] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z17] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z18] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z19] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z20] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z21] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z22] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Assigning partial charges to residue CAV[Z23] (net charge +0) with am1-bcc
method
Could not determine GAFF type for atom
Coulombic values for cavity 1_cavity SES surface #56.1.2.1.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 2_cavity SES surface #56.1.2.2.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 3_cavity SES surface #56.1.2.3.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 4_cavity SES surface #56.1.2.4.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 5_cavity SES surface #56.1.2.5.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 6_cavity SES surface #56.1.2.6.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 7_cavity SES surface #56.1.2.7.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 1_cavity SES surface #56.4.2.1.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 2_cavity SES surface #56.4.2.2.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 3_cavity SES surface #56.4.2.3.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 4_cavity SES surface #56.4.2.4.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 5_cavity SES surface #56.4.2.5.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for Asym_part_2 A_A SES surface #56.1.1: minimum, -20.92,
mean -1.49, maximum 10.56
Coulombic values for Asym_part_2 D_D SES surface #56.4.1: minimum, -20.68,
mean -1.49, maximum 10.63
To also show corresponding color key, enter the above coulombic command and
add key true
> coulombic #!56.1,4#!56.1.2.1-7#!56.4.2.1-5
Coulombic values for Asym_part_2 A_A SES surface #56.1.1: minimum, -20.92,
mean -1.49, maximum 10.56
Coulombic values for Asym_part_2 D_D SES surface #56.4.1: minimum, -20.68,
mean -1.49, maximum 10.63
Coulombic values for cavity 1_cavity SES surface #56.1.2.1.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 2_cavity SES surface #56.1.2.2.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 3_cavity SES surface #56.1.2.3.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 4_cavity SES surface #56.1.2.4.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 5_cavity SES surface #56.1.2.5.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 6_cavity SES surface #56.1.2.6.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 7_cavity SES surface #56.1.2.7.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 1_cavity SES surface #56.4.2.1.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 2_cavity SES surface #56.4.2.2.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 3_cavity SES surface #56.4.2.3.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 4_cavity SES surface #56.4.2.4.1: minimum, 0.00,
mean 0.00, maximum 0.00
Coulombic values for cavity 5_cavity SES surface #56.4.2.5.1: minimum, 0.00,
mean 0.00, maximum 0.00
To also show corresponding color key, enter the above coulombic command and
add key true
> show #!56.1,4#!56.1.2.1-7#!56.4.2.1-5 surfaces
> hide #!56.1,4#!56.1.2.1-7#!56.4.2.1-5 surfaces
> show #!56.1,4#!56.1.2.1-7#!56.4.2.1-5 surfaces
> color #56.4 #ffacfcff
> color #56.4 #ff97f2ff
> color #56.1 #ffacfcff
> color #56.1 #ff97f2ff
> interfaces #!56.1,4#!56.1.2.1-7#!56.4.2.1-5 & ~solvent
3 buried areas: #56.4/D #56.1/A 703, #56.1/A #56.1.2.4/cavity 430, #56.4/D
#56.4.2.2/cavity 416
> color (#!56.1,4#!56.4.2.2 & sel) red
> color (#!56.1,4#!56.4.2.2 & sel) magenta
> color (#!56.1,4#!56.4.2.2 & sel) light gray
> select ~sel & ##selected
3006 atoms, 3123 bonds, 7404 pseudobonds, 365 residues, 3 models selected
> select ~sel
724437 atoms, 727530 bonds, 17379 pseudobonds, 92863 residues, 327 models
selected
> select ~sel & ##selected
3006 atoms, 3123 bonds, 25237 pseudobonds, 365 residues, 3 models selected
Alignment identifier is 1
> select add #19
3006 atoms, 3123 bonds, 42582 pseudobonds, 365 residues, 5 models selected
> select subtract #19
3006 atoms, 3123 bonds, 365 residues, 4 models selected
> hide sel surfaces
> select ~sel & ##selected
242 atoms, 229 bonds, 352 pseudobonds, 29 residues, 3 models selected
> show sel surfaces
> color (#!56.1,4 & sel) #ffacfcff
> color (#!56.1,4 & sel) #ff97f2ff
> select clear
Drag select of Asym_part_2 A_A SES surface, 17938 of 191048 triangles, cavity
1_cavity SES surface, cavity 2_cavity SES surface, cavity 3_cavity SES
surface, cavity 4_cavity SES surface, cavity 5_cavity SES surface, cavity
6_cavity SES surface, cavity 7_cavity SES surface, Asym_part_2 D_D SES
surface, 25439 of 190622 triangles, cavity 1_cavity SES surface, cavity
2_cavity SES surface, cavity 3_cavity SES surface, cavity 4_cavity SES
surface, cavity 5_cavity SES surface, 394 residues
> color #56.1 #9bccffff
> color #56.1 #ff97f2ff
> color #56.4 #ff97f2ff
> select clear
> show sel surfaces
> select add #56.1
3809 atoms, 1676 bonds, 16187 pseudobonds, 216 residues, 14 models selected
> select add #56.4
7158 atoms, 3352 bonds, 30012 pseudobonds, 406 residues, 26 models selected
> hide sel surfaces
> show sel cartoons
> select clear
> show sel surfaces
> hide sel surfaces
> select clear
> show sel surfaces
> hide sel surfaces
> show sel atoms
> select clear
> color (#!56.1,4#!56.1.2.4 & sel) byelement
> color (#!56.1,4#!56.1.2.4 & sel) byhetero
> color (#!56.1,4#!56.1.2.4 & sel) #9bccffff
> color (#!56.1,4#!56.1.2.4 & sel) #ff97f2ff
> select clear
> color (#!56.1,4#!56.1.2.4 & sel) byhetero
> select clear
> show #!56.1,4#!56.1.2.1-7#!56.4.2.1-5 surfaces
> surface style #56.1.1#56.4.1#56.1.2.4 mesh
> surface style #56.1.1#56.4.1#56.1.2.4 dot
> surface style #56.1.1#56.4.1#56.1.2.4 solid
> transparency (#!56.1,4#!56.1.2.4 & sel) 20
> transparency (#!56.1,4#!56.1.2.4 & sel) 50
> transparency (#!56.1,4#!56.1.2.4 & sel) 80
> transparency (#!56.1,4#!56.1.2.4 & sel) 70
> transparency (#!56.1,4#!56.1.2.4 & sel) 60
> transparency (#!56.1,4#!56.1.2.4 & sel) 50
> select clear
> transparency (#!56.1,4#!56.1.2.4 & sel) 60
> select clear
> select #56.1.2.4/cavity:1@Z456
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z882
1 atom, 1 residue, 1 model selected
> select clear
> ui tool show "Find Cavities"
> select #56.1.2.4/cavity:1@Z943
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z456
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z800
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z798
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z876
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z1026
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z944
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z458
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z456
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z696
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z696
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z1025
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z946
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z700
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z324
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z453
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z696
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z696
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z1073
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z798
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z876
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z960
1 atom, 1 residue, 1 model selected
> show sel surfaces
> select add #56.1
3707 atoms, 1676 bonds, 16187 pseudobonds, 204 residues, 11 models selected
> show sel surfaces
> transparency (#!56.1#!56.1.2.1-7 & sel) 0
> select #56.1.2.4/cavity:1@Z932
1 atom, 1 residue, 1 model selected
> hide sel surfaces
> show sel surfaces
> select add #56.1
3707 atoms, 1676 bonds, 16187 pseudobonds, 204 residues, 11 models selected
> hide sel surfaces
> show sel cartoons
> show sel atoms
> select #56.1.2.4/cavity:1@Z529
1 atom, 1 residue, 1 model selected
> select #56.1.2.4/cavity:1@Z218
1 atom, 1 residue, 1 model selected
> ui tool show "Find Cavities"
> kvfinder #56.1
7 cavities found for Asym_part_2 A #!56.1
Asym_part_2 A Cavities
---
ID | | Volume | Area | Points
56.1.3.4 | | 301.97 | 202.77 | 1398
56.1.3.7 | | 67.61 | 83.82 | 313
56.1.3.3 | | 29.81 | 37.89 | 138
56.1.3.5 | | 18.36 | 31.06 | 85
56.1.3.1 | | 17.28 | 36.68 | 80
56.1.3.6 | | 9.29 | 15.23 | 43
56.1.3.2 | | 5.62 | 11.48 | 26
> select clear
> hide #!56.1 models
> show #!56.1 models
> select add #56.1
5790 atoms, 1676 bonds, 16187 pseudobonds, 211 residues, 18 models selected
> hide sel atoms
> show sel surfaces
> select #56.1.2.4/cavity:1@Z699
1 atom, 1 residue, 1 model selected
> select #56.1/cavity
4166 atoms, 14 residues, 14 models selected
> hide (#56.1.3.1-7#!56.1.2.1-7 & sel) target a
> surface hidePatches (#56.1.3.1-7#!56.1.2.1-7 & sel)
> select #56.4/cavity
1827 atoms, 5 residues, 5 models selected
> hide sel surfaces
> show sel surfaces
> hide sel surfaces
> show sel surfaces
> select #56.1/cavity
4166 atoms, 14 residues, 14 models selected
> hide sel surfaces
> transparency (#!56.1,4#!56.1.2.4 & sel) 50
> select clear
> show #!56.3 models
> hide #!56.3 models
> show #!56.2 models
> show #!56.3 models
> show #!56.5 models
> hide #!56.5 models
> hide #!56.2 models
> hide #!56.3 models
> lighting full
> lighting soft
> lighting simple
> lighting soft
> lighting shadows true intensity 0.5
> lighting shadows false
> lighting shadows true
> lighting soft
> lighting flat
> lighting soft
> save
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Paper_construction/Treponema_Denticola/T.d_WT_vs_mut_sheath&core_inter/Asym/4-FlaA2_FlaA2_complex.png
> width 1625 height 1210 supersample 3 transparentBackground true
> show #!56.2 models
> show #!56.3 models
> show #!56.5 models
> hide #!56 models
> show #!56 models
> hide #!56 models
> show #!101 models
> preset "overall look" "publication 1 (silhouettes)"
Using preset: Overall Look / Publication 1 (Silhouettes)
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
lighting depthCue f
> ui tool show "Volume Viewer"
> volume #101 level 0.14
> volume #101 level 0.125
> show #!102 models
> hide #!101 models
> show #!101 models
> show #!103 models
> hide #!102 models
> hide #!101 models
> show #!101 models
> hide #!103 models
> show #!103 models
> hide #!101 models
> volume #103 level 0.125
> show #!101 models
> hide #!101 models
> show #!101 models
> hide #!103 models
> hide #!101 models
> show #!101 models
> show #!103 models
> hide #!101 models
> show #!102 models
> hide #!103 models
> show #!103 models
> close #102
> close #101
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/Sheath_Asymmetry/Local_refine_sheath_mask/DFlaB3/cryosparc_P1_J2116_004_volume_map_sharp.mrc
Opened cryosparc_P1_J2116_004_volume_map_sharp.mrc as #16, grid size
360,360,360, pixel 1.07, shown at level 0.172, step 2, values float32
> rename #16 id #104
> rename #104 core_masked_map
> rename #103 sheath_masked_map
> volume #104 step 1
> surface dust #103 size 10.7
> surface dust #104 size 10.7
> hide #!103 models
> volume #104 level 0.15
> show #!103 models
> hide #!104 models
> volume #103 level 0.13
> volume #103 level 0.12
> show #3 models
> hide #3 models
> show #!2 models
> hide #!2 models
> show #!4 models
> volume #103 level 0.1002
> volume #103 level 0.11
> volume #104 level 0.11
> hide #!103 models
> volume #104 level 0.12
> hide #!4 models
> show #3 models
> hide #!104 models
> show #!103 models
> hide #3 atoms
> ui tool show "Fit in Map"
> fitmap #3 inMap #103
Fit molecule Asym_part_model.pdb (#3) to map sheath_masked_map (#103) using
32196 atoms
average map value = 0.1063, steps = 56
shifted from previous position = 0.202
rotated from previous position = 0.948 degrees
atoms outside contour = 17407, contour level = 0.11
Position of Asym_part_model.pdb (#3) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.85675819 0.51571636 -0.00142534 -74.04274785
-0.51570741 0.85671879 -0.00887564 129.76572487
-0.00335620 0.00833933 0.99995959 22.30218942
Axis 0.01668814 0.00187177 -0.99985899
Axis point 196.84109165 197.49213333 0.00000000
Rotation angle (degrees) 31.04991442
Shift along axis -23.29178907
> fitmap #3 inMap #103
Fit molecule Asym_part_model.pdb (#3) to map sheath_masked_map (#103) using
32196 atoms
average map value = 0.1062, steps = 40
shifted from previous position = 0.0228
rotated from previous position = 0.00729 degrees
atoms outside contour = 17412, contour level = 0.11
Position of Asym_part_model.pdb (#3) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.85676565 0.51570426 -0.00131767 -74.04284292
-0.51569419 0.85672606 -0.00894201 129.76740424
-0.00348255 0.00834072 0.99995915 22.31547078
Axis 0.01675421 0.00209867 -0.99985744
Axis point 196.86102329 197.49702518 0.00000000
Rotation angle (degrees) 31.04912114
Shift along axis -23.28047925
> fitmap #3 inMap #103
Fit molecule Asym_part_model.pdb (#3) to map sheath_masked_map (#103) using
32196 atoms
average map value = 0.1063, steps = 40
shifted from previous position = 0.0156
rotated from previous position = 0.0067 degrees
atoms outside contour = 17416, contour level = 0.11
Position of Asym_part_model.pdb (#3) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.85675984 0.51571365 -0.00141514 -74.03863526
-0.51570460 0.85672045 -0.00887835 129.76267926
-0.00336631 0.00833641 0.99995958 22.30126755
Axis 0.01668803 0.00189146 -0.99985896
Axis point 196.83993058 197.48436607 0.00000000
Rotation angle (degrees) 31.04973076
Shift along axis -23.28823950
> fitmap #3 inMap #103
Fit molecule Asym_part_model.pdb (#3) to map sheath_masked_map (#103) using
32196 atoms
average map value = 0.1062, steps = 40
shifted from previous position = 0.0113
rotated from previous position = 0.00507 degrees
atoms outside contour = 17409, contour level = 0.11
Position of Asym_part_model.pdb (#3) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.85676558 0.51570432 -0.00134163 -74.04233584
-0.51569449 0.85672604 -0.00892646 129.76515343
-0.00345401 0.00833976 0.99995926 22.31221390
Axis 0.01673820 0.00204778 -0.99985781
Axis point 196.85481412 197.49497569 0.00000000
Rotation angle (degrees) 31.04912022
Shift along axis -23.28264647
> show #!4 models
> hide #!4 models
> close #4
> volume zone #103 nearAtoms #3 range 5 invert false newMap true minimalBounds
> true bondPointSpacing 2
Opened sheath_masked_map zone as #4, grid size 147,99,230, pixel 1.07, shown
at step 1, values float32
> surface dust #4 size 10.7
> show #!7 models
> rename #7 FlaA1_sheath_sym_part_one_layer
> show #!6 models
> hide #!6 models
> show #5 models
> hide #5 models
> show #!1 models
> hide #!1 models
> show #!2 models
> hide #!2 models
> show #!103 models
> show #!104 models
> hide #!104 models
> hide #!103 models
> show #!8 models
> hide #!8 models
> show #!9 models
> hide #!9 models
> show #!13 models
> hide #!13 models
> show #!13 models
> show #13.1-11 target m
> hide #!13 models
> show #!14 models
> show #14.1-8,10-11#!14.9 target m
> show #!15 models
> hide #!15 models
> show #!15 models
> rename #15 FlaA1_sheath_all_sym
> hide #!15 models
> show #!17 models
> show #!17.1 models
> hide #!17.1 models
> hide #!17 models
> show #!18 models
> rename #15 FlaA1_sheath_all_sym_map
> show #18.1-33 target m
> hide #!18 models
> close #19
> close #21
> show #!18 models
> hide #!18 models
> show #61 models
> hide #3,61#14.1-8,10-11#!7.1,4,7,10,13,16,19,22#!14.9 atoms
> show #3,61#14.1-8,10-11#!7.1,4,7,10,13,16,19,22#!14.9 cartoons
> hide #!7 models
> hide #!14 models
> show #!103 models
> fitmap #61 inMap #103
Fit molecule FlaA1_sheath_sym_part (#61) to map sheath_masked_map (#103) using
62784 atoms
average map value = 0.09641, steps = 52
shifted from previous position = 0.975
rotated from previous position = 0.681 degrees
atoms outside contour = 36780, contour level = 0.11
Position of FlaA1_sheath_sym_part (#61) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.96994743 -0.24309272 -0.01038732 52.65357782
-0.24323412 -0.96984038 -0.01570940 429.23187410
-0.00625521 0.01776384 -0.99982263 365.06068504
Axis 0.99245790 -0.12251427 -0.00419227
Axis point 0.00000000 216.31500396 184.46408451
Rotation angle (degrees) 179.03372911
Shift along axis -1.86100435
> fitmap #61 inMap #103
Fit molecule FlaA1_sheath_sym_part (#61) to map sheath_masked_map (#103) using
62784 atoms
average map value = 0.09641, steps = 40
shifted from previous position = 0.00366
rotated from previous position = 0.00401 degrees
atoms outside contour = 36791, contour level = 0.11
Position of FlaA1_sheath_sym_part (#61) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.96993473 -0.24314497 -0.01034983 52.65785774
-0.24328584 -0.96982701 -0.01573358 429.24741509
-0.00621200 0.01777852 -0.99982264 365.05187724
Axis 0.99245470 -0.12254088 -0.00417196
Axis point 0.00000000 216.32198165 184.46134385
Rotation angle (degrees) 179.03260416
Shift along axis -1.86279710
> fitmap #61 inMap #103
Fit molecule FlaA1_sheath_sym_part (#61) to map sheath_masked_map (#103) using
62784 atoms
average map value = 0.09641, steps = 44
shifted from previous position = 0.00597
rotated from previous position = 0.00461 degrees
atoms outside contour = 36779, contour level = 0.11
Position of FlaA1_sheath_sym_part (#61) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.96994888 -0.24308646 -0.01039840 52.64991261
-0.24322807 -0.96984186 -0.01571183 429.23124947
-0.00626548 0.01776886 -0.99982248 365.06634286
Axis 0.99245826 -0.12251113 -0.00419765
Axis point 0.00000000 216.31401286 184.46744788
Rotation angle (degrees) 179.03351436
Shift along axis -1.86518464
> fitmap #61 inMap #103
Fit molecule FlaA1_sheath_sym_part (#61) to map sheath_masked_map (#103) using
62784 atoms
average map value = 0.09641, steps = 48
shifted from previous position = 0.00449
rotated from previous position = 0.0012 degrees
atoms outside contour = 36792, contour level = 0.11
Position of FlaA1_sheath_sym_part (#61) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.96994875 -0.24308673 -0.01040425 52.65025754
-0.24322832 -0.96984212 -0.01569177 429.23064563
-0.00627602 0.01775082 -0.99982273 365.07461989
Axis 0.99245823 -0.12251124 -0.00420178
Axis point 0.00000000 216.31546567 184.46961877
Rotation angle (degrees) 179.03461429
Shift along axis -1.86635999
> fitmap #61 inMap #103
Fit molecule FlaA1_sheath_sym_part (#61) to map sheath_masked_map (#103) using
62784 atoms
average map value = 0.09641, steps = 44
shifted from previous position = 0.0031
rotated from previous position = 0.00236 degrees
atoms outside contour = 36785, contour level = 0.11
Position of FlaA1_sheath_sym_part (#61) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.96995365 -0.24306864 -0.01036950 52.64174224
-0.24320969 -0.96984660 -0.01570365 429.22917787
-0.00623976 0.01775378 -0.99982291 365.06476606
Axis 0.99245947 -0.12250185 -0.00418388
Axis point 0.00000000 216.31331064 184.46499807
Rotation angle (degrees) 179.03418694
Shift along axis -1.86396022
> fitmap #61 inMap #103
Fit molecule FlaA1_sheath_sym_part (#61) to map sheath_masked_map (#103) using
62784 atoms
average map value = 0.09641, steps = 40
shifted from previous position = 0.0104
rotated from previous position = 0.00615 degrees
atoms outside contour = 36791, contour level = 0.11
Position of FlaA1_sheath_sym_part (#61) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.96992756 -0.24317263 -0.01037194 52.67203980
-0.24331371 -0.96982050 -0.01570409 429.24943202
-0.00624012 0.01775547 -0.99982288 365.05831754
Axis 0.99245289 -0.12255506 -0.00418462
Axis point 0.00000000 216.32664982 184.46208510
Rotation angle (degrees) 179.03411936
Shift along axis -1.85980109
> split #61
Split FlaA1_sheath_sym_part (#61) into 24 models
Chain information for FlaA1_sheath_sym_part A #61.1
---
Chain | Description
A | No description available
Chain information for FlaA1_sheath_sym_part B #61.2
---
Chain | Description
B | No description available
Chain information for FlaA1_sheath_sym_part C #61.3
---
Chain | Description
C | No description available
Chain information for FlaA1_sheath_sym_part D #61.4
---
Chain | Description
D | No description available
Chain information for FlaA1_sheath_sym_part E #61.5
---
Chain | Description
E | No description available
Chain information for FlaA1_sheath_sym_part G #61.6
---
Chain | Description
G | No description available
Chain information for FlaA1_sheath_sym_part H #61.7
---
Chain | Description
H | No description available
Chain information for FlaA1_sheath_sym_part Q #61.8
---
Chain | Description
Q | No description available
Chain information for FlaA1_sheath_sym_part R #61.9
---
Chain | Description
R | No description available
Chain information for FlaA1_sheath_sym_part S #61.10
---
Chain | Description
S | No description available
Chain information for FlaA1_sheath_sym_part T #61.11
---
Chain | Description
T | No description available
Chain information for FlaA1_sheath_sym_part U #61.12
---
Chain | Description
U | No description available
Chain information for FlaA1_sheath_sym_part V #61.13
---
Chain | Description
V | No description available
Chain information for FlaA1_sheath_sym_part W #61.14
---
Chain | Description
W | No description available
Chain information for FlaA1_sheath_sym_part X #61.15
---
Chain | Description
X | No description available
Chain information for FlaA1_sheath_sym_part Y #61.16
---
Chain | Description
Y | No description available
Chain information for FlaA1_sheath_sym_part Z #61.17
---
Chain | Description
Z | No description available
Chain information for FlaA1_sheath_sym_part a #61.18
---
Chain | Description
a | No description available
Chain information for FlaA1_sheath_sym_part b #61.19
---
Chain | Description
b | No description available
Chain information for FlaA1_sheath_sym_part c #61.20
---
Chain | Description
c | No description available
Chain information for FlaA1_sheath_sym_part d #61.21
---
Chain | Description
d | No description available
Chain information for FlaA1_sheath_sym_part e #61.22
---
Chain | Description
e | No description available
Chain information for FlaA1_sheath_sym_part f #61.23
---
Chain | Description
f | No description available
Chain information for FlaA1_sheath_sym_part g #61.24
---
Chain | Description
g | No description available
> combine #61
> hide #!103 models
> show #!8 models
> hide #!8 models
> show #!6 models
> hide #!6 models
> show #!8 models
> hide #!8 models
> show #!15 models
> hide #!15 models
> rename #16 FlaA1_sheath_sym_part
> rename #16 id #62
> rename #61 id #16
> rename #62 id #61
> hide #61 models
> hide #!4 models
> show #!4 models
> hide #3 models
> hide #!4 models
> select add #16
62784 atoms, 64056 bonds, 7872 residues, 25 models selected
> color #16 #a9fab5ff models
> select subtract #16
Nothing selected
> show #!103 models
> fitmap #16.1 inMap #103
Fit molecule FlaA1_sheath_sym_part A (#16.1) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1201, steps = 48
shifted from previous position = 0.425
rotated from previous position = 1.46 degrees
atoms outside contour = 1187, contour level = 0.11
Position of FlaA1_sheath_sym_part A (#16.1) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97350255 -0.22867241 -0.00130577 47.22169811
-0.22866800 -0.97350022 0.00287309 423.61116407
-0.00192816 -0.00249837 -0.99999501 367.96706043
Axis -0.99335346 0.11510095 0.00081562
Axis point 0.00000000 214.79177844 183.71483918
Rotation angle (degrees) 179.84508922
Shift along axis 2.15033027
> color #103 #fff6b653 models
> fitmap #16.2 inMap #103
Fit molecule FlaA1_sheath_sym_part B (#16.2) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1122, steps = 52
shifted from previous position = 0.324
rotated from previous position = 1.27 degrees
atoms outside contour = 1296, contour level = 0.11
Position of FlaA1_sheath_sym_part B (#16.2) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96612847 -0.25659888 -0.02743677 59.88014105
-0.25711749 -0.96622406 -0.01736785 431.92890105
-0.02205350 0.02383405 -0.99947264 367.73694304
Axis 0.99149505 -0.12954465 -0.01247982
Axis point 0.00000000 217.94960108 186.50763574
Rotation angle (degrees) 178.80944185
Shift along axis -1.17250397
> fitmap #16.3 inMap #103
Fit molecule FlaA1_sheath_sym_part C (#16.3) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.09848, steps = 88
shifted from previous position = 1.34
rotated from previous position = 2.14 degrees
atoms outside contour = 1482, contour level = 0.11
Position of FlaA1_sheath_sym_part C (#16.3) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96520857 -0.25906493 -0.03546476 63.22718086
-0.26032854 -0.96479501 -0.03741156 436.58628214
-0.02452421 0.04534245 -0.99867042 363.86700312
Axis 0.99126017 -0.13105029 -0.01513596
Axis point 0.00000000 218.64038074 187.01430627
Rotation angle (degrees) 177.60767492
Shift along axis -0.04765007
> fitmap #16.1 inMap #103
Fit molecule FlaA1_sheath_sym_part A (#16.1) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1201, steps = 40
shifted from previous position = 0.0095
rotated from previous position = 0.00904 degrees
atoms outside contour = 1184, contour level = 0.11
Position of FlaA1_sheath_sym_part A (#16.1) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97348572 -0.22874407 -0.00129884 47.23488084
-0.22873941 -0.97348302 0.00301266 423.59843816
-0.00195353 -0.00263568 -0.99999461 368.00416158
Axis -0.99334923 0.11513744 0.00082018
Axis point 0.00000000 214.79999345 183.71866121
Rotation angle (degrees) 179.83710351
Shift along axis 2.15313601
> fitmap #16.4 inMap #103
Fit molecule FlaA1_sheath_sym_part D (#16.4) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1051, steps = 56
shifted from previous position = 1.36
rotated from previous position = 1.91 degrees
atoms outside contour = 1382, contour level = 0.11
Position of FlaA1_sheath_sym_part D (#16.4) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96325677 -0.26776542 -0.02092975 60.99412610
-0.26775505 -0.96348119 0.00334797 430.46563407
-0.02106190 0.00237909 -0.99977533 371.98326581
Axis -0.99077103 0.13513063 0.01060533
Axis point 0.00000000 219.43818390 186.26499578
Rotation angle (degrees) 179.97198507
Shift along axis 1.68288534
> fitmap #16.3 inMap #103
Fit molecule FlaA1_sheath_sym_part C (#16.3) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.09848, steps = 76
shifted from previous position = 0.000479
rotated from previous position = 0.000911 degrees
atoms outside contour = 1481, contour level = 0.11
Position of FlaA1_sheath_sym_part C (#16.3) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96520829 -0.25906484 -0.03547306 63.22920683
-0.26032849 -0.96479555 -0.03739802 436.58353381
-0.02453575 0.04533153 -0.99867063 363.87302759
Axis 0.99126010 -0.13105023 -0.01514096
Axis point 0.00000000 218.64020852 187.01610566
Rotation angle (degrees) 177.60838229
Shift along axis -0.04717099
> fitmap #16.5 inMap #103
Fit molecule FlaA1_sheath_sym_part E (#16.5) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1171, steps = 48
shifted from previous position = 0.229
rotated from previous position = 0.761 degrees
atoms outside contour = 1220, contour level = 0.11
Position of FlaA1_sheath_sym_part E (#16.5) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96839866 -0.24896140 -0.01490768 54.97628495
-0.24928482 -0.96806556 -0.02657307 431.94803491
-0.00781595 0.02944959 -0.99953570 363.36542689
Axis 0.99206663 -0.12558263 -0.00572731
Axis point 0.00000000 216.86776586 184.91385385
Rotation angle (degrees) 178.38201956
Shift along axis -1.78613762
> fitmap #16.6 inMap #103
Fit molecule FlaA1_sheath_sym_part G (#16.6) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.08137, steps = 72
shifted from previous position = 1.75
rotated from previous position = 2.06 degrees
atoms outside contour = 1887, contour level = 0.11
Position of FlaA1_sheath_sym_part G (#16.6) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96773327 -0.25057459 -0.02654563 57.77453301
-0.25158927 -0.96670845 -0.04666476 436.45630267
-0.01396889 0.05183764 -0.99855781 360.25352648
Axis 0.99189551 -0.12664480 -0.01021760
Axis point 0.00000000 217.40538170 185.88726532
Rotation angle (degrees) 177.15388675
Shift along axis -1.64954489
> fitmap #16.7 inMap #103
Fit molecule FlaA1_sheath_sym_part H (#16.7) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1336, steps = 64
shifted from previous position = 0.54
rotated from previous position = 1.06 degrees
atoms outside contour = 1037, contour level = 0.11
Position of FlaA1_sheath_sym_part H (#16.7) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96737754 -0.25332067 0.00305192 52.77247713
-0.25328893 -0.96735560 -0.00823667 429.21229993
0.00503881 0.00719495 -0.99996141 365.50152412
Axis 0.99181076 -0.12769986 0.00204002
Axis point 0.00000000 217.28674679 183.53772914
Rotation angle (degrees) 179.55426182
Shift along axis -1.72441104
> fitmap #16.8 inMap #103
Fit molecule FlaA1_sheath_sym_part Q (#16.8) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1275, steps = 64
shifted from previous position = 1.23
rotated from previous position = 1.15 degrees
atoms outside contour = 1112, contour level = 0.11
Position of FlaA1_sheath_sym_part Q (#16.8) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97421564 -0.22550009 -0.00731959 48.21701531
-0.22555618 -0.97419697 -0.00804132 425.53240179
-0.00531741 0.00948497 -0.99994087 366.98237049
Axis 0.99353290 -0.11350009 -0.00317935
Axis point 0.00000000 214.70584439 184.51238565
Rotation angle (degrees) 179.49463395
Shift along axis -1.55953969
> fitmap #16.9 inMap #103
Fit molecule FlaA1_sheath_sym_part R (#16.9) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.09908, steps = 64
shifted from previous position = 2.66
rotated from previous position = 1.5 degrees
atoms outside contour = 1478, contour level = 0.11
Position of FlaA1_sheath_sym_part R (#16.9) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97455217 -0.22300977 -0.02268668 50.77965098
-0.22357555 -0.97432534 -0.02653457 428.30483153
-0.01618674 0.03093151 -0.99939042 364.77184488
Axis 0.99361635 -0.11238706 -0.00978268
Axis point 0.00000000 214.36974254 185.75181362
Rotation angle (degrees) 178.34291022
Shift along axis -1.24887651
> fitmap #16.10 inMap #103
Fit molecule FlaA1_sheath_sym_part S (#16.10) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1315, steps = 64
shifted from previous position = 1.4
rotated from previous position = 2.24 degrees
atoms outside contour = 1087, contour level = 0.11
Position of FlaA1_sheath_sym_part S (#16.10) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97245368 -0.23288858 0.00983472 47.47030234
-0.23302381 -0.97233724 0.01613003 423.06514157
0.00580616 -0.01797743 -0.99982152 370.34203952
Axis -0.99308902 0.11729742 -0.00393745
Axis point 0.00000000 215.93713317 183.24839688
Rotation angle (degrees) 179.01604527
Shift along axis 1.02401265
> fitmap #16.11 inMap #103
Fit molecule FlaA1_sheath_sym_part T (#16.11) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1218, steps = 72
shifted from previous position = 1.36
rotated from previous position = 1.48 degrees
atoms outside contour = 1156, contour level = 0.11
Position of FlaA1_sheath_sym_part T (#16.11) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96399210 -0.26498515 -0.02240730 59.79228649
-0.26541389 -0.96394797 -0.01896745 433.06027989
-0.01657338 0.02423168 -0.99956897 365.55982632
Axis 0.99095607 -0.13382575 -0.00983506
Axis point 0.00000000 218.55723406 185.45657600
Rotation angle (degrees) 178.75104245
Shift along axis -2.29839062
> fitmap #16.12 inMap #103
Fit molecule FlaA1_sheath_sym_part U (#16.12) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.09538, steps = 68
shifted from previous position = 1.09
rotated from previous position = 2.33 degrees
atoms outside contour = 1569, contour level = 0.11
Position of FlaA1_sheath_sym_part U (#16.12) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96337493 -0.26608901 -0.03324692 62.68057274
-0.26728384 -0.96282848 -0.03899550 437.38773514
-0.02163481 0.04645365 -0.99868612 362.36144092
Axis 0.99079714 -0.13464433 -0.01385421
Axis point 0.00000000 219.00862386 186.37750343
Rotation angle (degrees) 177.52855838
Shift along axis -1.80827714
> fitmap #16.13 inMap #103
Fit molecule FlaA1_sheath_sym_part V (#16.13) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1266, steps = 56
shifted from previous position = 1.55
rotated from previous position = 1.64 degrees
atoms outside contour = 1112, contour level = 0.11
Position of FlaA1_sheath_sym_part V (#16.13) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96335394 -0.26799396 -0.01133158 58.07846073
-0.26803904 -0.96340442 -0.00263951 430.82209757
-0.01020952 0.00558009 -0.99993230 368.04587198
Axis 0.99079616 -0.13525327 -0.00543419
Axis point 0.00000000 218.98999174 184.63273308
Rotation angle (degrees) 179.76233753
Shift along axis -2.72621411
> fitmap #16.14 inMap #103
Fit molecule FlaA1_sheath_sym_part W (#16.14) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1184, steps = 48
shifted from previous position = 1.04
rotated from previous position = 1.63 degrees
atoms outside contour = 1195, contour level = 0.11
Position of FlaA1_sheath_sym_part W (#16.14) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96586641 -0.25795354 -0.02370703 58.25715458
-0.25792164 -0.96615560 0.00444573 428.60961084
-0.02405147 0.00182058 -0.99970905 370.52527450
Axis -0.99142967 0.13008497 0.01204639
Axis point 0.00000000 218.25043792 185.47358359
Rotation angle (degrees) 179.92414476
Shift along axis 2.46128797
> fitmap #16.15 inMap #103
Fit molecule FlaA1_sheath_sym_part X (#16.15) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1092, steps = 48
shifted from previous position = 1.29
rotated from previous position = 1.71 degrees
atoms outside contour = 1313, contour level = 0.11
Position of FlaA1_sheath_sym_part X (#16.15) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96642642 -0.25414651 -0.03780888 61.20401018
-0.25494267 -0.96679039 -0.01790436 431.66169553
-0.03200294 0.02694234 -0.99912457 367.54995450
Axis 0.99157002 -0.12837066 -0.01760338
Axis point 0.00000000 217.69688885 186.77884127
Rotation angle (degrees) 178.70420359
Shift along axis -1.19475678
> fitmap #16.16 inMap #103
Fit molecule FlaA1_sheath_sym_part Y (#16.16) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1135, steps = 52
shifted from previous position = 2.2
rotated from previous position = 2.75 degrees
atoms outside contour = 1265, contour level = 0.11
Position of FlaA1_sheath_sym_part Y (#16.16) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96401739 -0.26534847 -0.01614435 57.80850955
-0.26488052 -0.96392095 0.02635689 427.39133801
-0.02255564 -0.02113218 -0.99952221 374.51323638
Axis -0.99096221 0.13378547 0.00976484
Axis point 0.00000000 219.86191869 184.96039764
Rotation angle (degrees) 178.62699916
Shift along axis 3.54976560
> fitmap #16.17 inMap #103
Fit molecule FlaA1_sheath_sym_part Z (#16.17) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1157, steps = 52
shifted from previous position = 0.817
rotated from previous position = 1.12 degrees
atoms outside contour = 1234, contour level = 0.11
Position of FlaA1_sheath_sym_part Z (#16.17) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96930445 -0.24467618 -0.02413358 55.54835262
-0.24479211 -0.96957367 -0.00192700 427.32875289
-0.02292780 0.00777556 -0.99970688 369.50204664
Axis 0.99229645 -0.12331745 -0.01185580
Axis point 0.00000000 216.66090830 185.60892145
Rotation angle (degrees) 179.71988329
Shift along axis -1.95740044
> fitmap #16.18 inMap #103
Fit molecule FlaA1_sheath_sym_part a (#16.18) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.09549, steps = 52
shifted from previous position = 2.17
rotated from previous position = 1.35 degrees
atoms outside contour = 1562, contour level = 0.11
Position of FlaA1_sheath_sym_part a (#16.18) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96922865 -0.24446548 -0.02885175 56.78587379
-0.24530243 -0.96897370 -0.03027665 432.88518235
-0.02055500 0.03642241 -0.99912506 363.91977505
Axis 0.99227516 -0.12343000 -0.01245122
Axis point 0.00000000 216.89214988 185.98105613
Rotation angle (degrees) 178.07397438
Shift along axis -1.61505295
> fitmap #16.19 inMap #103
Fit molecule FlaA1_sheath_sym_part b (#16.19) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1163, steps = 40
shifted from previous position = 0.96
rotated from previous position = 1.97 degrees
atoms outside contour = 1247, contour level = 0.11
Position of FlaA1_sheath_sym_part b (#16.19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.96799671 -0.25067740 -0.01196615 54.17122891
-0.25044950 -0.96796612 0.01779389 426.04158336
-0.01604336 -0.01422751 -0.99977006 372.24428918
Axis -0.99196637 0.12630467 0.00705984
Axis point 0.00000000 217.98376246 184.58315002
Rotation angle (degrees) 179.07518506
Shift along axis 2.70298966
> fitmap #16.20 inMap #103
Fit molecule FlaA1_sheath_sym_part c (#16.20) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1216, steps = 52
shifted from previous position = 0.918
rotated from previous position = 1.09 degrees
atoms outside contour = 1181, contour level = 0.11
Position of FlaA1_sheath_sym_part c (#16.20) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97124264 -0.23797666 -0.00740366 50.50658875
-0.23796629 -0.97127077 0.00226369 425.72519708
-0.00772966 -0.00043677 -0.99997002 368.31113901
Axis -0.99278447 0.11985181 0.00381426
Axis point 0.00000000 216.03738634 184.10688286
Rotation angle (degrees) 179.92207523
Shift along axis 2.28661617
> fitmap #16.21 inMap #103
Fit molecule FlaA1_sheath_sym_part d (#16.21) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1152, steps = 52
shifted from previous position = 1.36
rotated from previous position = 0.81 degrees
atoms outside contour = 1225, contour level = 0.11
Position of FlaA1_sheath_sym_part d (#16.21) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97223261 -0.23328418 -0.01849904 51.59597791
-0.23365549 -0.97208421 -0.02138651 428.78580212
-0.01299350 0.02511506 -0.99960011 364.62319854
Axis 0.99303295 -0.11756996 -0.00792926
Axis point 0.00000000 215.29776353 185.04400461
Rotation angle (degrees) 178.65835913
Shift along axis -2.06701852
> fitmap #16.22 inMap #103
Fit molecule FlaA1_sheath_sym_part e (#16.22) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1131, steps = 56
shifted from previous position = 1.39
rotated from previous position = 2.41 degrees
atoms outside contour = 1282, contour level = 0.11
Position of FlaA1_sheath_sym_part e (#16.22) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97056670 -0.24081291 0.00306796 49.70568777
-0.24081615 -0.97027416 0.02399207 423.68227169
-0.00280084 -0.02402472 -0.99970743 371.86579060
Axis -0.99261331 0.12132111 -0.00006709
Axis point 0.00000000 217.14439836 183.35137297
Rotation angle (degrees) 178.61404870
Shift along axis 2.03812687
> fitmap #16.23 inMap #103
Fit molecule FlaA1_sheath_sym_part f (#16.23) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.1204, steps = 48
shifted from previous position = 0.619
rotated from previous position = 1.01 degrees
atoms outside contour = 1166, contour level = 0.11
Position of FlaA1_sheath_sym_part f (#16.23) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97374953 -0.22739367 -0.01019532 48.27721058
-0.22757340 -0.97349063 -0.02294180 427.74795004
-0.00470823 0.02465976 -0.99968481 363.10558865
Axis 0.99341477 -0.11451211 -0.00375093
Axis point 0.00000000 214.46691265 184.22169909
Rotation angle (degrees) 178.62714468
Shift along axis -2.38501202
> fitmap #16.24 inMap #103
Fit molecule FlaA1_sheath_sym_part g (#16.24) to map sheath_masked_map (#103)
using 2616 atoms
average map value = 0.09811, steps = 68
shifted from previous position = 0.697
rotated from previous position = 2.1 degrees
atoms outside contour = 1506, contour level = 0.11
Position of FlaA1_sheath_sym_part g (#16.24) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97445387 -0.22373755 -0.01952271 49.34342177
-0.22441244 -0.97344105 -0.04529418 432.04691186
-0.00887021 0.04851823 -0.99878290 359.22716714
Axis 0.99358937 -0.11282322 -0.00714791
Axis point 0.00000000 214.55574216 184.92287872
Rotation angle (degrees) 177.29412681
Shift along axis -2.28555026
> color #103 #fff6b6ff models
> color #103 #fff6b6c8 models
> color #103 #fff6b64e models
> color #103 #fff6b64c models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_real_space_refined-1.pdb
Chain information for FlaA1_real_space_refined-1.pdb #19
---
Chain | Description
A | No description available
> rename #19 AF_FlaA1_TDE1712_J2116map_related
> rename #19 AF_FlaA1_TDE1712_J2116map_related.pdb
> rename #19 id #55
> rename #55.6 id #49
> color #103 #fff6b6ff models
> color #103 #fff6b6ec models
> color #103 #fff6b6be models
> preset "overall look" interactive
Using preset: Overall Look / Interactive
> set bgColor transparent
Preset expands to these ChimeraX commands:
~set bg
graphics silhouettes f
lighting depthCue t
> preset "overall look" "publication 1 (silhouettes)"
Using preset: Overall Look / Publication 1 (Silhouettes)
> set bgColor #ffffff00
Preset expands to these ChimeraX commands:
set bg white
graphics silhouettes t
lighting depthCue f
> select add #49
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> ui mousemode right "translate selected models"
> view matrix models #49,1,0,0,-42.627,0,1,0,-43.977,0,0,1,18.247
> view matrix models #49,1,0,0,-110,0,1,0,45.325,0,0,1,-4.847
> view matrix models #49,1,0,0,-130.14,0,1,0,49.526,0,0,1,42.599
> view matrix models #49,1,0,0,-64.95,0,1,0,130.73,0,0,1,13.374
> ui mousemode right "rotate selected models"
> view matrix models
> #49,0.6483,0.67122,0.3594,-167.61,0.74065,-0.66536,-0.093386,249.49,0.17645,0.32674,-0.9285,321.64
> view matrix models
> #49,0.95365,0.29361,0.065942,-108.08,0.28219,-0.94865,0.14292,307.62,0.10452,-0.11768,-0.98754,400.16
> ui mousemode right "translate selected models"
> view matrix models
> #49,0.95365,0.29361,0.065942,-66.291,0.28219,-0.94865,0.14292,265.42,0.10452,-0.11768,-0.98754,459.27
> view matrix models
> #49,0.95365,0.29361,0.065942,-47.999,0.28219,-0.94865,0.14292,278.96,0.10452,-0.11768,-0.98754,442.12
> fitmap #49 inMap #103
Fit molecule AF_FlaA1_TDE1712_J2116map_related.pdb (#49) to map
sheath_masked_map (#103) using 2616 atoms
average map value = 0.04067, steps = 140
shifted from previous position = 2.74
rotated from previous position = 5.85 degrees
atoms outside contour = 2116, contour level = 0.11
Position of AF_FlaA1_TDE1712_J2116map_related.pdb (#49) relative to
sheath_masked_map (#103) coordinates:
Matrix rotation and translation
0.94495457 0.30025714 0.13002505 -61.56523770
0.29401992 -0.95357108 0.06522639 293.87346972
0.14357282 -0.02340602 -0.98936293 426.68413434
Axis -0.98613558 -0.15073418 -0.06939619
Axis point 0.00000000 156.49509621 212.18124374
Rotation angle (degrees) 177.42430246
Shift along axis -13.19535754
> view matrix models
> #49,0.94495,0.30026,0.13003,-58.113,0.29402,-0.95357,0.065226,297.65,0.14357,-0.023406,-0.98936,425.92
> view matrix models
> #49,0.94495,0.30026,0.13003,-71.942,0.29402,-0.95357,0.065226,307.52,0.14357,-0.023406,-0.98936,420.4
> view matrix models
> #49,0.94495,0.30026,0.13003,-71.157,0.29402,-0.95357,0.065226,304.06,0.14357,-0.023406,-0.98936,376.56
> fitmap #49 inMap #103
Fit molecule AF_FlaA1_TDE1712_J2116map_related.pdb (#49) to map
sheath_masked_map (#103) using 2616 atoms
average map value = 0.1326, steps = 100
shifted from previous position = 4.49
rotated from previous position = 8.45 degrees
atoms outside contour = 1041, contour level = 0.11
Position of AF_FlaA1_TDE1712_J2116map_related.pdb (#49) relative to
sheath_masked_map (#103) coordinates:
Matrix rotation and translation
0.95458754 0.29791989 0.00252510 -50.67425979
0.29793059 -0.95455380 -0.00802625 321.03075399
0.00001916 0.00841406 -0.99996461 394.82521485
Axis 0.98858149 0.15068585 0.00064336
Axis point 0.00000000 163.54717396 198.10463163
Rotation angle (degrees) 179.52357452
Shift along axis -1.46682864
> view matrix models
> #49,0.95459,0.29792,0.0025251,-49.407,0.29793,-0.95455,-0.0080262,326.74,1.9162e-05,0.0084141,-0.99996,442.49
> fitmap #49 inMap #103
Fit molecule AF_FlaA1_TDE1712_J2116map_related.pdb (#49) to map
sheath_masked_map (#103) using 2616 atoms
average map value = 0.1257, steps = 92
shifted from previous position = 6.28
rotated from previous position = 2 degrees
atoms outside contour = 1111, contour level = 0.11
Position of AF_FlaA1_TDE1712_J2116map_related.pdb (#49) relative to
sheath_masked_map (#103) coordinates:
Matrix rotation and translation
0.96200717 0.27262565 0.01474691 -49.50796978
0.27247967 -0.96209662 0.01117708 323.71631382
0.01723511 -0.00673420 -0.99982879 446.71296586
Axis -0.99045606 -0.13759224 -0.00807277
Axis point 0.00000000 166.31648790 222.81914070
Rotation angle (degrees) 179.48192795
Shift along axis 0.88840515
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_real_space_refined-1.pdb
Chain information for FlaA1_real_space_refined-1.pdb #19
---
Chain | Description
A | No description available
> rename #19 FlaA1_sheath_sym_part h
Expected a keyword
> rename #19 FlaA1_sheath_sym_part_h
> rename #19 id #16.25
> mmaker #16.25 to #49
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker AF_FlaA1_TDE1712_J2116map_related.pdb, chain A (#49) with
FlaA1_sheath_sym_part_h, chain A (#16.25), sequence alignment score = 1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
> select subtract #49
Nothing selected
> hide #49 models
> color #16.25 #cafac5ff
> color #16.25 #a9fab5ff
> hide #!16 models
> show #!16 models
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_real_space_refined-1.pdb
Chain information for FlaA1_real_space_refined-1.pdb #19
---
Chain | Description
A | No description available
> select add #19
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> view matrix models #19,1,0,0,-69.463,0,1,0,170.32,0,0,1,6.8273
> ui mousemode right "rotate selected models"
> view matrix models
> #19,0.94496,0.25246,-0.20813,-52.662,0.015051,-0.66897,-0.74314,524.31,-0.32685,0.6991,-0.63595,285.9
> view matrix models
> #19,0.86229,-0.020301,-0.506,52.269,-0.29945,-0.82622,-0.47716,539.25,-0.40838,0.56298,-0.71853,331.39
> view matrix models
> #19,0.94591,-0.30312,-0.11559,-0.47949,-0.32364,-0.85717,-0.40065,531.85,0.022363,0.41639,-0.90891,322.88
> mmaker #119 to #16.25
No molecules/chains to match specified
> mmaker #19 to #16.25
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaA1_sheath_sym_part_h, chain A (#16.25) with
FlaA1_real_space_refined-1.pdb, chain A (#19), sequence alignment score =
1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
> ui mousemode right "translate selected models"
> view matrix models
> #19,0.96201,0.27263,0.014747,-3.267,0.27248,-0.9621,0.011177,329.14,0.017235,-0.0067342,-0.99983,466.46
> view matrix models
> #19,0.96201,0.27263,0.014747,-8.274,0.27248,-0.9621,0.011177,336.64,0.017235,-0.0067342,-0.99983,458.92
> view matrix models
> #19,0.96201,0.27263,0.014747,-6.5037,0.27248,-0.9621,0.011177,336.5,0.017235,-0.0067342,-0.99983,468.26
> view matrix models
> #19,0.96201,0.27263,0.014747,-2.2049,0.27248,-0.9621,0.011177,342.81,0.017235,-0.0067342,-0.99983,466.86
> view matrix models
> #19,0.96201,0.27263,0.014747,-7.9531,0.27248,-0.9621,0.011177,346.51,0.017235,-0.0067342,-0.99983,466.15
> view matrix models
> #19,0.96201,0.27263,0.014747,-6.3655,0.27248,-0.9621,0.011177,346.74,0.017235,-0.0067342,-0.99983,463.27
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.05001, steps = 152
shifted from previous position = 4.84
rotated from previous position = 12.8 degrees
atoms outside contour = 2083, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97005089 0.16438854 0.17882298 -24.71484896
0.18456394 -0.97744555 -0.10264657 380.67473421
0.15791581 0.13257667 -0.97851214 424.81718816
Axis 0.99245781 0.08821188 0.08512438
Axis point 0.00000000 178.82475313 224.75291638
Rotation angle (degrees) 173.19414632
Shift along axis 45.21388974
> color #103 #fff6b6d8 models
> color #103 #fff6b6ff models
> ui mousemode right "rotate selected models"
> view matrix models
> #19,0.97824,0.20485,0.03299,-2.6305,0.20741,-0.96985,-0.12795,381.24,0.0057843,0.13201,-0.99123,450.04
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.05001, steps = 108
shifted from previous position = 0.602
rotated from previous position = 8.84 degrees
atoms outside contour = 2083, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.97004490 0.16441663 0.17882964 -24.71854322
0.18458570 -0.97744629 -0.10260041 380.65857034
0.15792716 0.13253640 -0.97851576 424.82287563
Axis 0.99245632 0.08822439 0.08512884
Axis point 0.00000000 178.82146272 224.75132722
Rotation angle (degrees) 173.19664879
Shift along axis 45.21597424
> ui mousemode right "translate selected models"
> view matrix models
> #19,0.97004,0.16442,0.17883,-28.361,0.18459,-0.97745,-0.1026,377.42,0.15793,0.13254,-0.97852,431.97
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.04549, steps = 68
shifted from previous position = 1.04
rotated from previous position = 5.95 degrees
atoms outside contour = 2162, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.98599399 0.08826079 0.14151276 -14.32389738
0.09737446 -0.99350854 -0.05881299 384.48018664
0.13540325 0.07176899 -0.98818781 444.27844280
Axis 0.99648857 0.04662244 0.06954767
Axis point 0.00000000 185.30382075 228.93944412
Rotation angle (degrees) 176.24322837
Shift along axis 34.55033595
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.04549, steps = 44
shifted from previous position = 0.0175
rotated from previous position = 0.0165 degrees
atoms outside contour = 2162, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.98602218 0.08836988 0.14124804 -14.27955647
0.09746613 -0.99349907 -0.05882111 384.45821929
0.13513178 0.07176582 -0.98822520 444.33554796
Axis 0.99649565 0.04667253 0.06941252
Axis point 0.00000000 185.29097412 228.96523238
Rotation angle (degrees) 176.24311251
Shift along axis 34.55657220
> view matrix models
> #19,0.98602,0.08837,0.14125,-16.532,0.097466,-0.9935,-0.058821,384.42,0.13513,0.071766,-0.98823,443.47
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.04549, steps = 56
shifted from previous position = 2.4
rotated from previous position = 0.011 degrees
atoms outside contour = 2160, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.98601029 0.08826368 0.14139739 -14.30211280
0.09736439 -0.99351149 -0.05877980 384.47817598
0.13529181 0.07172456 -0.98820630 444.30384826
Axis 0.99649267 0.04662038 0.06949033
Axis point 0.00000000 185.30622682 228.94713890
Rotation angle (degrees) 176.24547990
Shift along axis 34.54739114
> view matrix models
> #19,0.98601,0.088264,0.1414,-16.21,0.097364,-0.99351,-0.05878,386.49,0.13529,0.071725,-0.98821,388.47
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.1261, steps = 120
shifted from previous position = 6.48
rotated from previous position = 23.9 degrees
atoms outside contour = 1110, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.95774354 -0.28737144 -0.01203959 63.91447537
-0.28740218 -0.95780959 -0.00086852 433.34391123
-0.01128205 0.00429202 -0.99992713 420.73431959
Axis 0.98937948 -0.14523605 -0.00589333
Axis point 0.00000000 221.08586934 210.84287741
Rotation angle (degrees) 179.85057434
Shift along axis -2.18101607
> view matrix models
> #19,0.95774,-0.28737,-0.01204,68.009,-0.2874,-0.95781,-0.00086852,431.89,-0.011282,0.004292,-0.99993,475.33
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.1109, steps = 60
shifted from previous position = 3.14
rotated from previous position = 1.95 degrees
atoms outside contour = 1305, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.95008875 -0.31197374 -0.00193400 67.98777048
-0.31188314 -0.94993059 0.01899379 432.31384124
-0.00776272 -0.01744260 -0.99981772 476.28080698
Axis -0.98744228 0.15796114 0.00245517
Axis point 0.00000000 223.81985440 236.20707491
Rotation angle (degrees) 178.94283961
Shift along axis 2.32413863
> select subtract #19
Nothing selected
> rename #19 id #16.26
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_real_space_refined-1.pdb
Chain information for FlaA1_real_space_refined-1.pdb #19
---
Chain | Description
A | No description available
> mmaker #19 to #16.25
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaA1_sheath_sym_part_h, chain A (#16.25) with
FlaA1_real_space_refined-1.pdb, chain A (#19), sequence alignment score =
1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
> select add #19
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> view matrix models
> #19,0.96201,0.27263,0.014747,-66.705,0.27248,-0.9621,0.011177,277.89,0.017235,-0.0067342,-0.99983,476.4
> view matrix models
> #19,0.96201,0.27263,0.014747,-74.275,0.27248,-0.9621,0.011177,279.74,0.017235,-0.0067342,-0.99983,473.89
> view matrix models
> #19,0.96201,0.27263,0.014747,-70.358,0.27248,-0.9621,0.011177,282.34,0.017235,-0.0067342,-0.99983,477.59
> ui mousemode right "rotate selected models"
> view matrix models
> #19,0.74688,0.66074,0.074764,-99.155,0.66343,-0.74806,-0.016306,202.34,0.045155,0.061779,-0.99707,464.22
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.1129, steps = 100
shifted from previous position = 4.3
rotated from previous position = 8.71 degrees
atoms outside contour = 1280, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.65154525 0.75824668 0.02346832 -84.86370931
0.75751528 -0.65195502 0.03354487 166.84040646
0.04073558 -0.00407839 -0.99916164 470.46895898
Axis -0.90871005 -0.41705393 -0.01766537
Axis point 0.00000000 105.57403615 235.11089394
Rotation angle (degrees) 178.81380877
Shift along axis -0.77594775
> select subtract #19
Nothing selected
> rename #19 id #16.27
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_real_space_refined-1.pdb
Chain information for FlaA1_real_space_refined-1.pdb #19
---
Chain | Description
A | No description available
> mmaker #19 to #16.25
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaA1_sheath_sym_part_h, chain A (#16.25) with
FlaA1_real_space_refined-1.pdb, chain A (#19), sequence alignment score =
1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
> select add #19
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> view matrix models
> #19,0.6464,-0.76081,-0.057824,142.55,-0.75653,-0.64892,0.081074,423.76,-0.099205,-0.0086602,-0.99503,463.37
> mmaker #19 to #16.25
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaA1_sheath_sym_part_h, chain A (#16.25) with
FlaA1_real_space_refined-1.pdb, chain A (#19), sequence alignment score =
1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
> mmaker #19 to #16.26
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaA1_real_space_refined-1.pdb, chain A (#16.26) with
FlaA1_real_space_refined-1.pdb, chain A (#19), sequence alignment score =
1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
> ui mousemode right "translate selected models"
> view matrix models
> #19,0.95009,-0.31197,-0.001934,197.5,-0.31188,-0.94993,0.018994,301.88,-0.0077627,-0.017443,-0.99982,455.38
> view matrix models
> #19,0.95009,-0.31197,-0.001934,228.51,-0.31188,-0.94993,0.018994,326.39,-0.0077627,-0.017443,-0.99982,421.57
> view matrix models
> #19,0.95009,-0.31197,-0.001934,172.72,-0.31188,-0.94993,0.018994,426.41,-0.0077627,-0.017443,-0.99982,465.54
> ui mousemode right "rotate selected models"
> view matrix models
> #19,0.19704,-0.97853,-0.06039,380.74,-0.97749,-0.20082,0.064698,421.81,-0.075437,0.046283,-0.99608,466.82
> view matrix models
> #19,0.18685,-0.98217,0.020938,366.87,-0.9799,-0.18785,-0.067209,446.24,0.069944,-0.0079596,-0.99752,452.31
> ui mousemode right "translate selected models"
> view matrix models
> #19,0.18685,-0.98217,0.020938,346.07,-0.9799,-0.18785,-0.067209,431.21,0.069944,-0.0079596,-0.99752,471.62
> view matrix models
> #19,0.18685,-0.98217,0.020938,344.2,-0.9799,-0.18785,-0.067209,430.16,0.069944,-0.0079596,-0.99752,458.41
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.1036, steps = 64
shifted from previous position = 2.95
rotated from previous position = 6.98 degrees
atoms outside contour = 1406, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
0.12675724 -0.99192467 0.00425155 355.55701053
-0.99130237 -0.12652249 0.03621746 401.84377004
-0.03538709 -0.00880540 -0.99933499 474.37409458
Axis -0.75051998 0.66076634 0.01037365
Axis point 0.00000000 362.18037648 235.65220599
Rotation angle (degrees) 178.28118707
Shift along axis 3.59318587
> rename #19 id #16.28
> open
> /Users/clem/Jiaqi_Wang/Yale/Tomography/Data/Data_Clem_Wang/Treponema_Denticola/T.Denticola_WT/FlaA1_real_space_refined-1.pdb
Chain information for FlaA1_real_space_refined-1.pdb #19
---
Chain | Description
A | No description available
> mmaker #19 to #16.28
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker FlaA1_real_space_refined-1.pdb, chain A (#16.28) with
FlaA1_real_space_refined-1.pdb, chain A (#19), sequence alignment score =
1665.1
RMSD between 328 pruned atom pairs is 0.000 angstroms; (across all 328 pairs:
0.000)
> select subtract #16.28
Nothing selected
> select add #19
2616 atoms, 2669 bonds, 328 residues, 1 model selected
> view matrix models
> #19,0.12676,-0.99192,0.0042515,253.72,-0.9913,-0.12652,0.036217,224.96,-0.035387,-0.0088054,-0.99933,467.67
> view matrix models
> #19,0.12676,-0.99192,0.0042515,366.89,-0.9913,-0.12652,0.036217,331.99,-0.035387,-0.0088054,-0.99933,419.25
> view matrix models
> #19,0.12676,-0.99192,0.0042515,364.69,-0.9913,-0.12652,0.036217,317.15,-0.035387,-0.0088054,-0.99933,472.37
> ui mousemode right "rotate selected models"
> view matrix models
> #19,-0.47706,-0.87837,0.029742,435.32,-0.87723,0.47383,-0.077206,246.22,0.053723,-0.062922,-0.99657,465.41
> fitmap #19 inMap #103
Fit molecule FlaA1_real_space_refined-1.pdb (#19) to map sheath_masked_map
(#103) using 2616 atoms
average map value = 0.1021, steps = 156
shifted from previous position = 5.73
rotated from previous position = 28.8 degrees
atoms outside contour = 1454, contour level = 0.11
Position of FlaA1_real_space_refined-1.pdb (#19) relative to sheath_masked_map
(#103) coordinates:
Matrix rotation and translation
-0.83512323 -0.54995056 0.01111617 454.02491958
-0.54971312 0.83514232 0.01878281 133.87955403
-0.01961320 0.00957526 -0.99976179 464.10942626
Axis -0.28701805 0.95789658 0.00740161
Axis point 249.01283593 0.00000000 229.63504426
Rotation angle (degrees) 179.08093485
Shift along axis 1.36457672
> rename #19 id #16.29
> select subtract #16.29
Nothing selected
> rename #16.26 FlaA1_sheath_sym_part_i
> rename #16.27 FlaA1_sheath_sym_part_j
> rename #16.28 FlaA1_sheath_sym_part_k
> rename #16.29 FlaA1_sheath_sym_part_l
> color #16.26 #fff6b6ff
> color #16.26 #a9fab5ff
> color #16.27 #a9fab5ff
> color #16.28 #58ac5aff
> color #16.28 #a9fab5ff
> color #16.29 #a9fab5ff
> hide #!103 models
> show #!103 models
> show #!55 models
> show #!56 models
> show #!57 models
> show #!58 models
> hide
> #16.1-29#58.1-5#56.1.3.1-7#56.5.2.1-12#!55.1-5#!56.1-5#!57.1-5#!56.1.2.1-7#!56.4.2.1-5
> surfaces
> show
> #16.1-29#58.1-5#56.1.3.1-7#56.5.2.1-12#!55.1-5#!56.1-5#!57.1-5#!56.1.2.1-7#!56.4.2.1-5
> cartoons
> hide
> #16.1-29#58.1-5#56.1.3.1-7#56.5.2.1-12#!55.1-5#!56.1-5#!57.1-5#!56.1.2.1-7#!56.4.2.1-5
> atoms
> close #56.1.2
> close #56.1.3
> close #56.4.2
> close #56.5.2
> fitmap #55.1 inMap #103
Fit molecule Asym_part_1 A (#55.1) to map sheath_masked_map (#103) using 1624
atoms
average map value = 0.09951, steps = 44
shifted from previous position = 1.08
rotated from previous position = 1.96 degrees
atoms outside contour = 954, contour level = 0.11
Position of Asym_part_1 A (#55.1) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.85520454 0.51800792 0.01711716 -78.70791176
-0.51745894 0.85523664 -0.02839942 135.33865809
-0.02935035 0.01542989 0.99945009 26.36346556
Axis 0.04224776 0.04479077 -0.99810266
Axis point 205.54278711 207.47464708 0.00000000
Rotation angle (degrees) 31.24627079
Shift along axis -23.57675566
> fitmap #55.2 inMap #103
Fit molecule Asym_part_1 B (#55.2) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.113, steps = 68
shifted from previous position = 1.37
rotated from previous position = 3.02 degrees
atoms outside contour = 787, contour level = 0.11
Position of Asym_part_1 B (#55.2) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.87512486 0.48384751 0.00693286 -74.52868979
-0.48377326 0.87513517 -0.01009284 122.60672956
-0.01095059 0.00547856 0.99992503 24.34667727
Axis 0.01608763 0.01847634 -0.99969986
Axis point 201.35683337 205.22735307 0.00000000
Rotation angle (degrees) 28.94407150
Shift along axis -23.27303692
> fitmap #55.3 inMap #103
Fit molecule Asym_part_1 C (#55.3) to map sheath_masked_map (#103) using 1579
atoms
average map value = 0.1062, steps = 40
shifted from previous position = 0.833
rotated from previous position = 1.39 degrees
atoms outside contour = 845, contour level = 0.11
Position of Asym_part_1 C (#55.3) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.84672406 0.53197255 0.00797322 -76.85347785
-0.53164939 0.84658811 -0.02524873 136.87209131
-0.02018167 0.01713975 0.99964940 23.43737015
Axis 0.03980742 0.02644052 -0.99885748
Axis point 200.70338976 200.58711768 0.00000000
Rotation angle (degrees) 32.16906134
Shift along axis -22.85096119
> fitmap #55.4 inMap map #103
Invalid "inMap" argument: invalid density map specifier
> fitmap #55.4 inMap #103
Fit molecule Asym_part_1 D (#55.4) to map sheath_masked_map (#103) using 1624
atoms
average map value = 0.08559, steps = 68
shifted from previous position = 1.21
rotated from previous position = 1.57 degrees
atoms outside contour = 1106, contour level = 0.11
Position of Asym_part_1 D (#55.4) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.84394019 0.53524507 -0.03574468 -64.92272182
-0.53607674 0.84394119 -0.01962104 138.70451738
0.01966434 0.03572087 0.99916832 14.23308998
Axis 0.05152014 -0.05158260 -0.99733891
Axis point 204.39627095 178.51353224 0.00000000
Rotation angle (degrees) 32.48577143
Shift along axis -24.69478220
> fitmap #55.5 inMap #103
Fit molecule Asym_part_1 E (#55.5) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.09144, steps = 44
shifted from previous position = 1.11
rotated from previous position = 1.94 degrees
atoms outside contour = 1017, contour level = 0.11
Position of Asym_part_1 E (#55.5) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.86583177 0.50023550 -0.00998981 -72.40692566
-0.50024232 0.86588318 0.00198325 121.87612857
0.00964210 0.00328017 0.99994813 20.21225629
Axis 0.00129604 -0.01961875 -0.99980669
Axis point 190.27106194 195.71950915 0.00000000
Rotation angle (degrees) 30.02220748
Shift along axis -22.69324861
> fitmap #56.1 inMap #103
Fit molecule Asym_part_2 A (#56.1) to map sheath_masked_map (#103) using 1624
atoms
average map value = 0.1202, steps = 52
shifted from previous position = 0.735
rotated from previous position = 2.61 degrees
atoms outside contour = 749, contour level = 0.11
Position of Asym_part_2 A (#56.1) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.86632228 0.49868652 0.02823929 -79.31014804
-0.49864154 0.86676036 -0.00911574 124.70081241
-0.02902260 -0.00618411 0.99955963 -21.78793378
Axis 0.00293464 0.05732065 -0.99835151
Axis point 190.59317837 210.29711652 0.00000000
Rotation angle (degrees) 29.96609458
Shift along axis 28.66720205
> fitmap #56.2 inMap #103
Fit molecule Asym_part_2 B (#56.2) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.1373, steps = 68
shifted from previous position = 0.796
rotated from previous position = 4.04 degrees
atoms outside contour = 622, contour level = 0.11
Position of Asym_part_2 B (#56.2) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.88793637 0.45954087 0.01977838 -75.42945903
-0.45978593 0.88797132 0.01018992 110.69132409
-0.01287995 -0.01814182 0.99975246 -23.15110101
Axis -0.03078390 0.03548496 -0.99889598
Axis point 187.80520493 207.97127654 0.00000000
Rotation angle (degrees) 27.39817067
Shift along axis 29.37543159
> fitmap #56.3 inMap #103
Fit molecule Asym_part_2 C (#56.3) to map sheath_masked_map (#103) using 1579
atoms
average map value = 0.1162, steps = 44
shifted from previous position = 1.29
rotated from previous position = 1.84 degrees
atoms outside contour = 758, contour level = 0.11
Position of Asym_part_2 C (#56.3) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.85928842 0.51116971 0.01813699 -77.49656516
-0.51115136 0.85946989 -0.00598391 125.65227825
-0.01864699 -0.00412884 0.99981760 -24.88854117
Axis 0.00181339 0.03595753 -0.99935167
Axis point 187.83920461 203.41729517 0.00000000
Rotation angle (degrees) 30.76327194
Shift along axis 29.25001936
> fitmap #56.4 inMap #103
Fit molecule Asym_part_2 D (#56.4) to map sheath_masked_map (#103) using 1624
atoms
average map value = 0.1145, steps = 56
shifted from previous position = 1.63
rotated from previous position = 0.47 degrees
atoms outside contour = 757, contour level = 0.11
Position of Asym_part_2 D (#56.4) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.85696460 0.51495106 -0.02090657 -66.57796947
-0.51513448 0.85709904 -0.00420693 128.57831207
0.01575264 0.01437489 0.99977258 -33.06453834
Axis 0.01802476 -0.03556021 -0.99920497
Axis point 199.94662852 185.78246628 0.00000000
Rotation angle (degrees) 31.02770995
Shift along axis 27.26592700
> fitmap #56.5 inMap #103
Fit molecule Asym_part_2 E (#56.5) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.1204, steps = 56
shifted from previous position = 1.92
rotated from previous position = 2.81 degrees
atoms outside contour = 745, contour level = 0.11
Position of Asym_part_2 E (#56.5) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.87924492 0.47636667 0.00178127 -73.06428590
-0.47631634 0.87908360 0.01829692 111.00275289
0.00715016 -0.01693592 0.99983101 -27.52379108
Axis -0.03695691 -0.00563160 -0.99930099
Axis point 183.24811353 197.53534486 0.00000000
Rotation angle (degrees) 28.46844591
Shift along axis 29.57965877
> fitmap #57.5 inMap #103
Fit molecule Asym_part_3 E (#57.5) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.1243, steps = 52
shifted from previous position = 0.583
rotated from previous position = 2.07 degrees
atoms outside contour = 723, contour level = 0.11
Position of Asym_part_3 E (#57.5) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.89362675 0.44859665 0.01386618 -74.12681205
-0.44877316 0.89272442 0.04056782 96.61783449
0.00581991 -0.04247526 0.99908057 -74.59447618
Axis -0.09214314 0.00892799 -0.99570575
Axis point 168.62915527 188.39138290 0.00000000
Rotation angle (degrees) 26.78346839
Shift along axis 81.96702914
> fitmap #57.4 inMap #103
Fit molecule Asym_part_3 D (#57.4) to map sheath_masked_map (#103) using 1624
atoms
average map value = 0.126, steps = 52
shifted from previous position = 0.678
rotated from previous position = 1.65 degrees
atoms outside contour = 688, contour level = 0.11
Position of Asym_part_3 D (#57.4) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.87077885 0.49159026 -0.00912166 -67.97056210
-0.49148170 0.87080692 0.01187640 116.76382543
0.01378153 -0.00585859 0.99988787 -80.96581915
Axis -0.01803256 -0.02328746 -0.99956617
Axis point 192.46102475 185.94375686 0.00000000
Rotation angle (degrees) 29.45562395
Shift along axis 79.43724336
> fitmap #57.3 inMap #103
Fit molecule Asym_part_3 C (#57.3) to map sheath_masked_map (#103) using 1579
atoms
average map value = 0.1085, steps = 52
shifted from previous position = 0.921
rotated from previous position = 1.51 degrees
atoms outside contour = 815, contour level = 0.11
Position of Asym_part_3 C (#57.3) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.87563243 0.48168714 0.03528955 -79.73008012
-0.48238578 0.87583848 0.01452271 111.53288768
-0.02391254 -0.02973974 0.99927160 -71.49145486
Axis -0.04577757 0.06122861 -0.99707345
Axis point 168.99824455 201.38623193 0.00000000
Rotation angle (degrees) 28.91105577
Shift along axis 81.76108418
> fitmap #57.2 inMap #103
Fit molecule Asym_part_3 B (#57.2) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.1388, steps = 56
shifted from previous position = 0.697
rotated from previous position = 3.14 degrees
atoms outside contour = 619, contour level = 0.11
Position of Asym_part_3 B (#57.2) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.90135661 0.43194498 0.03130173 -76.16769267
-0.43280473 0.90099824 0.02970244 97.44949294
-0.01537298 -0.04032003 0.99906855 -70.52107810
Axis -0.08059355 0.05372105 -0.99529831
Axis point 169.33356669 199.78901141 0.00000000
Rotation angle (degrees) 25.74822452
Shift along axis 81.56322352
> fitmap #57.1 inMap #103
Fit molecule Asym_part_3 A (#57.1) to map sheath_masked_map (#103) using 1624
atoms
average map value = 0.1222, steps = 52
shifted from previous position = 0.115
rotated from previous position = 2 degrees
atoms outside contour = 732, contour level = 0.11
Position of Asym_part_3 A (#57.1) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.88231352 0.46877328 0.04212437 -80.89544971
-0.46956832 0.88282859 0.01092075 110.48557909
-0.03206925 -0.02941580 0.99905269 -68.93945798
Axis -0.04281402 0.07875059 -0.99597455
Axis point 169.87573348 207.83401404 0.00000000
Rotation angle (degrees) 28.10358387
Shift along axis 80.82620942
> fitmap #58.1 inMap #103
Fit molecule Asym_part_4 A (#58.1) to map sheath_masked_map (#103) using 1624
atoms
average map value = 0.1037, steps = 52
shifted from previous position = 0.376
rotated from previous position = 1.84 degrees
atoms outside contour = 896, contour level = 0.11
Position of Asym_part_4 A (#58.1) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.89462170 0.44417997 0.04854029 -81.05183893
-0.44577741 0.89467565 0.02894794 97.19998079
-0.03056972 -0.04753562 0.99840165 -117.40294150
Axis -0.08529123 0.08822014 -0.99244275
Axis point 146.58104529 191.90316212 0.00000000
Rotation angle (degrees) 26.63896801
Shift along axis 132.00370500
> fitmap #58.2 inMap #103
Fit molecule Asym_part_4 B (#58.2) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.1144, steps = 52
shifted from previous position = 0.764
rotated from previous position = 3.31 degrees
atoms outside contour = 805, contour level = 0.11
Position of Asym_part_4 B (#58.2) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.91421622 0.40293798 0.04300787 -77.22055532
-0.40482529 0.91287509 0.05268350 82.29272865
-0.01803263 -0.06557478 0.99768470 -117.25272551
Axis -0.14445474 0.07456214 -0.98669819
Axis point 141.32645025 174.05637544 0.00000000
Rotation angle (degrees) 24.16252871
Shift along axis 132.98384903
> fitmap #58.3 inMap #103
Fit molecule Asym_part_4 C (#58.3) to map sheath_masked_map (#103) using 1579
atoms
average map value = 0.08212, steps = 56
shifted from previous position = 1.22
rotated from previous position = 0.976 degrees
atoms outside contour = 1093, contour level = 0.11
Position of Asym_part_4 C (#58.3) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.88861725 0.45731128 0.03501109 -78.53630790
-0.45842052 0.88799401 0.03629412 97.26675839
-0.01449193 -0.04830138 0.99872767 -120.90733812
Axis -0.09185555 0.05375140 -0.99432054
Axis point 152.12082923 182.13878922 0.00000000
Rotation angle (degrees) 27.41816163
Shift along axis 132.66287024
> fitmap #58.4 inMap #103
Fit molecule Asym_part_4 D (#58.4) to map sheath_masked_map (#103) using 1624
atoms
average map value = 0.114, steps = 68
shifted from previous position = 0.812
rotated from previous position = 1.76 degrees
atoms outside contour = 798, contour level = 0.11
Position of Asym_part_4 D (#58.4) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.88293189 0.46950032 0.00085725 -69.31700480
-0.46925598 0.88241047 0.03392037 102.88120045
0.01516918 -0.03035164 0.99942417 -128.93159108
Axis -0.06829726 -0.01520827 -0.99754909
Axis point 180.07018993 173.36925517 0.00000000
Rotation angle (degrees) 28.06879494
Shift along axis 131.78510843
> fitmap #58.5 inMap #103
Fit molecule Asym_part_4 E (#58.5) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.1037, steps = 64
shifted from previous position = 0.731
rotated from previous position = 2.29 degrees
atoms outside contour = 895, contour level = 0.11
Position of Asym_part_4 E (#58.5) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.90794073 0.41863384 0.01973154 -73.89954073
-0.41902315 0.90587740 0.06169060 81.08140864
0.00795141 -0.06427938 0.99790026 -122.85894981
Axis -0.14869717 0.01390547 -0.98878501
Axis point 152.54001227 162.61641703 0.00000000
Rotation angle (degrees) 25.06074746
Shift along axis 133.59721521
> fitmap #58.5 inMap #103
Fit molecule Asym_part_4 E (#58.5) to map sheath_masked_map (#103) using 1611
atoms
average map value = 0.1036, steps = 40
shifted from previous position = 0.00379
rotated from previous position = 0.00897 degrees
atoms outside contour = 895, contour level = 0.11
Position of Asym_part_4 E (#58.5) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
0.90791857 0.41867925 0.01978761 -73.91155468
-0.41907098 0.90584602 0.06182638 81.05981354
0.00796089 -0.06442573 0.99789075 -122.84041408
Axis -0.14900649 0.01395825 -0.98873770
Axis point 152.46391479 162.51851236 0.00000000
Rotation angle (degrees) 25.06501193
Shift along axis 133.60170227
> combine #55-58
Remapping chain ID 'A' in Asym_part_2 A #56.1 to 'F'
Remapping chain ID 'B' in Asym_part_2 B #56.2 to 'G'
Remapping chain ID 'C' in Asym_part_2 C #56.3 to 'H'
Remapping chain ID 'D' in Asym_part_2 D #56.4 to 'I'
Remapping chain ID 'E' in Asym_part_2 E #56.5 to 'J'
Remapping chain ID 'A' in Asym_part_3 A #57.1 to 'K'
Remapping chain ID 'B' in Asym_part_3 B #57.2 to 'L'
Remapping chain ID 'C' in Asym_part_3 C #57.3 to 'M'
Remapping chain ID 'D' in Asym_part_3 D #57.4 to 'N'
Remapping chain ID 'E' in Asym_part_3 E #57.5 to 'O'
Remapping chain ID 'A' in Asym_part_4 A #58.1 to 'P'
Remapping chain ID 'B' in Asym_part_4 B #58.2 to 'Q'
Remapping chain ID 'C' in Asym_part_4 C #58.3 to 'R'
Remapping chain ID 'D' in Asym_part_4 D #58.4 to 'S'
Remapping chain ID 'E' in Asym_part_4 E #58.5 to 'T'
> hide #19 models
> show #19 models
> select add #19
32196 atoms, 33008 bonds, 3984 residues, 1 model selected
> select subtract #19
Nothing selected
> rename #19 Asym_part_model.pdb
> show #3 models
> hide #3 models
> close #3
> rename #19 id #3
> hide #!55 models
> hide #!56 models
> hide #!57 models
> hide #!58 models
> show #!4 models
> hide #!4 models
> hide #!103 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> close #4
> volume zone #103 nearAtoms #3 range 5 invert false newMap true minimalBounds
> true bondPointSpacing 2
Opened sheath_masked_map zone as #4, grid size 147,99,230, pixel 1.07, shown
at step 1, values float32
> surface dust #4 size 10.7
> rename #4 Asym_part_map_zone
> hide #!4 models
> show #5 models
> hide #5 models
> show #!6 models
> hide #!6 models
> show #!7 models
> hide #!7 models
> show #!8 models
> close #8
> volume zone #103 nearAtoms #16 range 5 invert false newMap true
> minimalBounds true bondPointSpacing 2
Opened sheath_masked_map zone as #8, grid size 203,202,264, pixel 1.07, shown
at step 1, values float32
> surface dust #8 size 10.7
> hide #!8 models
> show #!8 models
> color #8 #a9fab5ff models
> rename #8 Sym_part_map_zone
> show #!4 models
> color #4 #d6741dff models
> color #4 #76609fff models
> color #4 #febe0eff models
> color #4 #fdd900ff models
> color #4 #fdf100ff models
> color #4 #fddc00ff models
> color #4 #a89200ff models
> color #4 #a89b45ff models
> color #4 #a89552ff models
> color #4 #c0aa5eff models
> show #!9 models
> hide #!9 models
> close #9-12
> show #5 models
> show #!6 models
> close #6
> show #!103 models
> hide #!8 models
> hide #!16 models
> hide #3 models
> hide #!4 models
> fitmap #5 inMap #103
Fit molecule FlaB1_core_long.pdb (#5) to map sheath_masked_map (#103) using
216018 atoms
average map value = 0.08392, steps = 56
shifted from previous position = 0.667
rotated from previous position = 0.661 degrees
atoms outside contour = 156278, contour level = 0.11
Position of FlaB1_core_long.pdb (#5) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
-0.44913203 0.89343216 -0.00770671 106.45522107
0.89339980 0.44897783 -0.01599060 -62.19268972
-0.01082638 -0.01406706 -0.99984244 381.40647802
Axis 0.52481747 0.85116901 -0.00882835
Axis point 72.60642083 0.00000000 190.32328410
Rotation angle (degrees) 179.89500092
Shift along axis -0.43412162
> fitmap #5 inMap #103
Fit molecule FlaB1_core_long.pdb (#5) to map sheath_masked_map (#103) using
216018 atoms
average map value = 0.08392, steps = 28
shifted from previous position = 0.0197
rotated from previous position = 0.0013 degrees
atoms outside contour = 156277, contour level = 0.11
Position of FlaB1_core_long.pdb (#5) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
-0.44913169 0.89343215 -0.00772768 106.44345783
0.89339999 0.44897714 -0.01599941 -62.18916013
-0.01082484 -0.01408975 -0.99984214 381.42206285
Axis 0.52481764 0.85116881 -0.00883761
Axis point 72.59798923 -0.00000000 190.33117529
Rotation angle (degrees) 179.89575836
Shift along axis -0.44092742
> volume zone #103 nearAtoms #5 range 5 invert false newMap true minimalBounds
> true bondPointSpacing 2
Opened sheath_masked_map zone as #6, grid size 146,146,360, pixel 1.07, shown
at step 1, values float32
> surface dust #6 size 10.7
> show #!35 models
> fitmap #35 inMap #103
Fit map Glycan_all.mrc in map sheath_masked_map using 37363 points
correlation = 0.6469, correlation about mean = 0.2251, overlap = 844.3
steps = 56, shift = 0.717, angle = 0.856 degrees
Position of Glycan_all.mrc (#35) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
-0.12599883 0.99202301 0.00383431 24.14550820
-0.99199110 -0.12602730 0.00841576 404.03671984
0.00883185 -0.00274322 0.99995726 15.60214762
Axis -0.00562434 -0.00251886 -0.99998101
Axis point 189.98996295 191.40403576 0.00000000
Rotation angle (degrees) 97.24049688
Shift along axis -16.75536576
> fitmap #35 inMap #103
Fit map Glycan_all.mrc in map sheath_masked_map using 37363 points
correlation = 0.6469, correlation about mean = 0.2252, overlap = 844.3
steps = 48, shift = 0.00209, angle = 0.00517 degrees
Position of Glycan_all.mrc (#35) relative to sheath_masked_map (#103)
coordinates:
Matrix rotation and translation
-0.12608044 0.99201276 0.00380350 24.16898295
-0.99198058 -0.12610870 0.00843635 404.04800775
0.00884862 -0.00270934 0.99995720 15.59092235
Axis -0.00561770 -0.00254287 -0.99998099
Axis point 189.99184041 191.39999157 0.00000000
Rotation angle (degrees) 97.24520610
Shift along axis -16.75384017
> hide #!35 models
> show #!4 models
> show #!8 models
> show #!7 models
> hide #!7 models
> show #!13 models
> hide #!13 models
> show #3 models
> show #!15 models
> hide #!15 models
> show #!16 models
> hide #!4 models
> hide #!16 models
> show #!16 models
> hide #!8 models
> show #!8 models
> hide #!8 models
> show #!8 models
> volume #8 level 0.125
===== Log before crash end =====
Log:
Startup Messages
---
warning | Registration file '/Users/clem/Library/Application Support/ChimeraX/registration' has expired
note | available bundle cache has not been initialized yet
You can double click a model's Name or ID in the model panel to edit those
fields
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M4 Pro
OpenGL vendor: Apple
Python: 3.11.4
Locale: en_US.UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: Mac mini
Model Identifier: Mac16,11
Model Number: Z1JV000KLLL/A
Chip: Apple M4 Pro
Total Number of Cores: 14 (10 performance and 4 efficiency)
Memory: 24 GB
System Firmware Version: 11881.121.1
OS Loader Version: 11881.121.1
Software:
System Software Overview:
System Version: macOS 15.5 (24F74)
Kernel Version: Darwin 24.5.0
Time since boot: 34 days, 18 hours, 21 minutes
Graphics/Displays:
Apple M4 Pro:
Chipset Model: Apple M4 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 20
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
LS32D70xE:
Resolution: 5120 x 2880 (5K/UHD+ - Ultra High Definition Plus)
UI Looks like: 2560 x 1440 @ 60.00Hz
Main Display: Yes
Mirror: Off
Online: Yes
Rotation: Supported
LG HDR 4K:
Resolution: 2560 x 1440 (QHD/WQHD - Wide Quad High Definition)
UI Looks like: 2560 x 1440 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
alabaster: 1.0.0
anyio: 4.7.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.4.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.9
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.6
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.2.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.1.6
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
ChimeraX-ModelPanel: 1.5
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.14
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.6
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.18.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.41
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.3.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.9
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.3
funcparserlib: 2.0.0a0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
ihm: 1.3
imagecodecs: 2024.6.1
imagesize: 1.4.1
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.7
line_profiler: 4.1.3
lxml: 5.2.2
lz4: 4.3.3
MarkupSafe: 3.0.2
matplotlib: 3.10.3
matplotlib: 3.9.2
matplotlib-inline: 0.1.7
msgpack: 1.0.8
narwhals: 1.46.0
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numpy: 2.2.6
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.4.0
pip: 24.2
pkginfo: 1.11.1
platformdirs: 4.3.6
plotly: 6.0.1
prompt_toolkit: 3.0.48
psutil: 6.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.18.0
pyKVFinder: 0.8.1
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-Qt6: 6.7.3
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.2
pyzmq: 26.2.0
qtconsole: 5.5.2
QtPy: 2.4.2
qtshim: 1.0
RandomWords: 0.4.0
requests: 2.32.3
scipy: 1.14.0
setuptools: 72.1.0
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.6
Sphinx: 8.0.2
sphinx-autodoc-typehints: 2.2.3
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.10.1
tcia_utils: 1.5.1
tifffile: 2024.7.24
tinyarray: 1.2.4
tomlkit: 0.13.2
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.12.2
tzdata: 2024.2
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.13
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