![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 16 months ago
Closed 16 months ago
#15510 closed defect (duplicate)
Crash in garbage collection
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description (last modified by )
The following bug report has been submitted:
Platform: macOS-13.2-x86_64-i386-64bit
ChimeraX Version: 1.7 (2023-12-19 08:36:03 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Thread 0x000000031a77e000 (most recent call first):
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 324 in wait
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 622 in wait
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1392 in run
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1038 in _bootstrap_inner
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 995 in _bootstrap
Current thread 0x0000000204dc52c0 (most recent call first):
Garbage-collecting
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 333 in pointer
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molc.py", line 251 in set_cvec_pointer
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molarray.py", line 133 in __init__
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molarray.py", line 1063 in __init__
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 2225 in process_changes
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/molobject.py", line 2231 in changes
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/atomic/changes.py", line 36 in check_for_changes
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 69 in draw_new_frame
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/updateloop.py", line 150 in _redraw_timer_callback
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 275 in event_loop
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 918 in init
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1069 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.QtWebChannel, PyQt6.QtNetwork, PyQt6.QtWebEngineCore, PyQt6.QtPrintSupport, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, charset_normalizer.md, PIL._imaging, matplotlib._c_internal_utils, matplotlib._path, kiwisolver._cext, matplotlib._image, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.surface._surface, chimerax.pdb_lib._load_libs, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.pdb._pdbio, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.mmcif.mmcif_write (total: 53)
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{
"uptime" : 4100,
"procRole" : "Foreground",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "MacBookAir10,1",
"coalitionID" : 896,
"osVersion" : {
"train" : "macOS 13.2",
"build" : "22D49",
"releaseType" : "User"
},
"captureTime" : "2024-06-27 22:47:46.9093 +0200",
"incident" : "13173A63-4FA2-4C58-8373-114B4635624F",
"pid" : 735,
"translated" : true,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-06-27 20:51:11.5975 +0200",
"procStartAbsTime" : 4635762842,
"procExitAbsTime" : 98653227157,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.7.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.7.0","CFBundleVersion":"1.7.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"D82AA68D-AACC-5141-AE12-1309469013C3","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "311D3808-133C-AE77-3A0C-264C8C389551",
"throttleTimeout" : 2147483647,
"wakeTime" : 498,
"sleepWakeUUID" : "C0BCE3A9-10B0-485B-87AC-5430566404A5",
"sip" : "enabled",
"vmRegionInfo" : "0xa9 is not in any region. Bytes before following region: 140723039453015\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n mapped file 7ffca2c74000-7ffcad740000 [170.8M] r-x\/r-x SM=COW ...t_id=c296771b",
"exception" : {"codes":"0x0000000000000001, 0x00000000000000a9","rawCodes":[1,169],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00000000000000a9"},
"ktriageinfo" : "VM - pmap_enter retried due to resource shortage\nVM - pmap_enter retried due to resource shortage\nVM - pmap_enter retried due to resource shortage\nVM - pmap_enter retried due to resource shortage\nVM - pmap_enter retried due to resource shortage\n",
"vmregioninfo" : "0xa9 is not in any region. Bytes before following region: 140723039453015\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n mapped file 7ffca2c74000-7ffcad740000 [170.8M] r-x\/r-x SM=COW ...t_id=c296771b",
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"faultingThread" : 0,
"threads" : 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"rolloutId" : "6297d96be2c9387df974efa4",
"factorPackIds" : {
},
"deploymentId" : 240000025
}
],
"experiments" : [
{
"treatmentId" : "c47ab4cc-c9c3-4b5d-a87c-e2433ce02597",
"experimentId" : "6639bc6ba73d460582162323",
"deploymentId" : 400000006
},
{
"treatmentId" : "45f4e2a5-551b-4bc2-a2dc-19c244dda8f8",
"experimentId" : "6643969b3099cf28e049862f",
"deploymentId" : 400000002
}
]
},
"reportNotes" : [
"dyld_process_snapshot_create_for_process failed with 5"
]
}
===== Log before crash start =====
Startup Messages
---
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
UCSF ChimeraX version: 1.7 (2023-12-19)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/nezakoritnik/Desktop/JGMV-VLP/h/JGMVVLP-h_P78_J310.mrc
Opened JGMVVLP-h_P78_J310.mrc as #1, grid size 350,350,350, pixel 0.953, shown
at level 0.557, step 2, values float32
> open /Users/nezakoritnik/Desktop/JGMV-
> VLP/h/Rigidbodyrefine5/chains_filament5_real_space_refined.pdb
Chain information for chains_filament5_real_space_refined.pdb #2
---
Chain | Description
Aa Ab Ac Ad Ae Af Ag Ah Ai Aj Ak Al Am An Ao Ap Aq Ar As At Au Av Aw Ax | No
description available
> select /Aa:79-256
1474 atoms, 1510 bonds, 178 residues, 1 model selected
> save /Users/nezakoritnik/Desktop/JGMV-VLP/h/Coot6/mono6.cif selectedOnly
> true relModel #2
Not saving entity_poly_seq for non-authoritative sequences
> open /Users/nezakoritnik/Desktop/JGMV-VLP/h/Coot6/mono6.cif
Summary of feedback from opening /Users/nezakoritnik/Desktop/JGMV-
VLP/h/Coot6/mono6.cif
---
warnings | Unknown polymer entity '1' near line 162
Missing or incomplete sequence information. Inferred polymer connectivity.
Chain information for mono6.cif #3
---
Chain | Description
Aa | No description available
> close #2
> close #3
> open /Users/nezakoritnik/Desktop/JGMV-VLP/h/Coot6/mono6.cif-coot-1.pdb
Chain information for mono6.cif-coot-1.pdb #2
---
Chain | Description
Aa | No description available
> open /Users/nezakoritnik/Desktop/JGMV-VLP/h/Coot6/mono6.cif-coot-1.pdb
Chain information for mono6.cif-coot-1.pdb #3
---
Chain | Description
Aa | No description available
> open /Users/nezakoritnik/Desktop/JGMV-VLP/h/Coot6/mono6.cif-coot-1.pdb
Chain information for mono6.cif-coot-1.pdb #4
---
Chain | Description
Aa | No description available
> volume #1 step 1
> set bgColor white
> select add #3
1474 atoms, 1510 bonds, 178 residues, 1 model selected
> ui mousemode right "translate selected models"
> view matrix models #3,1,0,0,27.627,0,1,0,1.3921,0,0,1,-5.4142
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.82289,-0.5639,-0.069817,137.19,0.56701,0.8229,0.036532,-60.801,0.036852,-0.069649,0.99689,-0.9935
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.82289,-0.5639,-0.069817,138.78,0.56701,0.8229,0.036532,-60.508,0.036852,-0.069649,0.99689,-1.223
> view matrix models
> #3,0.82289,-0.5639,-0.069817,136.2,0.56701,0.8229,0.036532,-66.119,0.036852,-0.069649,0.99689,-1.3143
> ui tool show "Fit in Map"
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 116
shifted from previous position = 5.55
rotated from previous position = 8.12 degrees
atoms outside contour = 718, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74906285 -0.66246933 -0.00626329 153.49151039
0.66249322 0.74906220 0.00292549 -69.03560807
0.00275355 -0.00634076 0.99997611 -4.37962061
Axis -0.00699326 -0.00680503 0.99995239
Axis point 167.90741708 168.04167073 0.00000000
Rotation angle (degrees) 41.49179735
Shift along axis -4.98302943
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5782, steps = 28
shifted from previous position = 0.0264
rotated from previous position = 0.0315 degrees
atoms outside contour = 719, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74921846 -0.66229080 -0.00652673 153.46542894
0.66231508 0.74922122 0.00250736 -68.97582173
0.00322936 -0.00620131 0.99997556 -4.47236200
Axis -0.00657422 -0.00736492 0.99995127
Axis point 167.85236547 168.11113893 0.00000000
Rotation angle (degrees) 41.47821389
Shift along axis -4.97305835
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 40
shifted from previous position = 0.0137
rotated from previous position = 0.0263 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74908919 -0.66243861 -0.00636254 153.48968300
0.66246301 0.74908906 0.00288687 -69.03656591
0.00285374 -0.00637747 0.99997559 -4.39232275
Axis -0.00699213 -0.00695586 0.99995136
Axis point 167.91430398 168.05076075 0.00000000
Rotation angle (degrees) 41.48951905
Shift along axis -4.98512075
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 40
shifted from previous position = 0.00678
rotated from previous position = 0.0117 degrees
atoms outside contour = 716, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74897713 -0.66256544 -0.00634780 153.52552291
0.66258943 0.74897768 0.00277284 -69.01899699
0.00291717 -0.00628278 0.99997601 -4.41218987
Axis -0.00683330 -0.00699128 0.99995221
Axis point 167.88625050 168.05617517 0.00000000
Rotation angle (degrees) 41.49916252
Shift along axis -4.97853417
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5782, steps = 44
shifted from previous position = 0.0126
rotated from previous position = 0.0141 degrees
atoms outside contour = 716, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74912138 -0.66240135 -0.00645143 153.48795882
0.66242613 0.74912193 0.00282014 -69.02454812
0.00296484 -0.00638622 0.99997521 -4.40787898
Axis -0.00694876 -0.00710720 0.99995060
Axis point 167.90538827 168.06948895 0.00000000
Rotation angle (degrees) 41.48672186
Shift along axis -4.98364129
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 36
shifted from previous position = 0.0177
rotated from previous position = 0.012 degrees
atoms outside contour = 717, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74904675 -0.66248733 -0.00628539 153.49999406
0.66251121 0.74904648 0.00287498 -69.03070931
0.00280341 -0.00631763 0.99997611 -4.39061253
Axis -0.00693749 -0.00685916 0.99995241
Axis point 167.90231614 168.04819684 0.00000000
Rotation angle (degrees) 41.49317277
Shift along axis -4.98181652
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5782, steps = 40
shifted from previous position = 0.015
rotated from previous position = 0.0104 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74911844 -0.66240490 -0.00642747 153.48806081
0.66242961 0.74911875 0.00284810 -69.02954957
0.00292834 -0.00639131 0.99997529 -4.40187903
Axis -0.00697367 -0.00706152 0.99995075
Axis point 167.91107436 168.06564491 0.00000000
Rotation angle (degrees) 41.48698355
Shift along axis -4.98458355
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 40
shifted from previous position = 0.0054
rotated from previous position = 0.0106 degrees
atoms outside contour = 716, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74900624 -0.66253245 -0.00635591 153.51416311
0.66255670 0.74900635 0.00284731 -69.03148365
0.00287419 -0.00634380 0.99997575 -4.39872435
Axis -0.00693589 -0.00696531 0.99995169
Axis point 167.90275665 168.04771151 0.00000000
Rotation angle (degrees) 41.49667526
Shift along axis -4.98244290
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 44
shifted from previous position = 0.00652
rotated from previous position = 0.00797 degrees
atoms outside contour = 717, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74906541 -0.66246654 -0.00625327 153.48643221
0.66249023 0.74906502 0.00287893 -69.03151879
0.00277691 -0.00629924 0.99997630 -4.38921992
Axis -0.00692681 -0.00681513 0.99995279
Axis point 167.90019053 168.03861396 0.00000000
Rotation angle (degrees) 41.49155604
Shift along axis -4.98172563
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5782, steps = 40
shifted from previous position = 0.0109
rotated from previous position = 0.00574 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74911319 -0.66241185 -0.00632223 153.47388800
0.66243598 0.74911300 0.00287807 -69.03429302
0.00282960 -0.00634407 0.99997587 -4.39356527
Axis -0.00696057 -0.00690750 0.99995192
Axis point 167.90810840 168.04237488 0.00000000
Rotation angle (degrees) 41.48743371
Shift along axis -4.98476512
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 44
shifted from previous position = 0.0122
rotated from previous position = 0.00878 degrees
atoms outside contour = 717, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74903568 -0.66250042 -0.00622510 153.49179196
0.66252397 0.74903514 0.00289100 -69.03407173
0.00274753 -0.00628974 0.99997644 -4.38591299
Axis -0.00692841 -0.00677135 0.99995307
Axis point 167.89975778 168.03072869 0.00000000
Rotation angle (degrees) 41.49412764
Shift along axis -4.98170788
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 40
shifted from previous position = 0.00392
rotated from previous position = 0.00609 degrees
atoms outside contour = 716, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74896528 -0.66257995 -0.00623072 153.51689170
0.66260353 0.74896476 0.00288915 -69.03547348
0.00275230 -0.00629237 0.99997641 -4.38535598
Axis -0.00692816 -0.00677838 0.99995303
Axis point 167.89958348 168.03067910 0.00000000
Rotation angle (degrees) 41.50021548
Shift along axis -4.98079179
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 28
shifted from previous position = 0.0018
rotated from previous position = 0.0108 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74904545 -0.66249004 -0.00615225 153.48208481
0.66251346 0.74904395 0.00301258 -69.05068238
0.00261250 -0.00633251 0.99997654 -4.35975435
Axis -0.00705255 -0.00661458 0.99995325
Axis point 167.91757422 168.01346466 0.00000000
Rotation angle (degrees) 41.49331982
Shift along axis -4.98524887
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 40
shifted from previous position = 0.0168
rotated from previous position = 0.0148 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74909685 -0.66242998 -0.00635866 153.48472088
0.66245433 0.74909677 0.00287811 -69.03383261
0.00285670 -0.00636831 0.99997564 -4.39386649
Axis -0.00697870 -0.00695526 0.99995146
Axis point 167.90982368 168.04920579 0.00000000
Rotation angle (degrees) 41.48885199
Shift along axis -4.98462847
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5782, steps = 44
shifted from previous position = 0.0081
rotated from previous position = 0.0108 degrees
atoms outside contour = 718, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74905019 -0.66248158 -0.00647742 153.51494338
0.66250632 0.74905127 0.00275009 -69.02264329
0.00303003 -0.00635129 0.99997524 -4.42344625
Axis -0.00686869 -0.00717514 0.99995067
Axis point 167.90218901 168.07365131 0.00000000
Rotation angle (degrees) 41.49285434
Shift along axis -4.98242678
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#3) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5783, steps = 28
shifted from previous position = 0.0228
rotated from previous position = 0.0143 degrees
atoms outside contour = 716, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.74903328 -0.66250277 -0.00626242 153.50441565
0.66252651 0.74903295 0.00287443 -69.03078631
0.00278644 -0.00630207 0.99997626 -4.38958078
Axis -0.00692518 -0.00682886 0.99995270
Axis point 167.90163789 168.04789841 0.00000000
Rotation angle (degrees) 41.49433373
Shift along axis -4.98101725
> select subtract #3
Nothing selected
> select add #4
1474 atoms, 1510 bonds, 178 residues, 1 model selected
> view matrix models #4,1,0,0,47.978,0,1,0,7.5468,0,0,1,-7.7587
> ui mousemode right "rotate selected models"
> view matrix models
> #4,0.38828,-0.92143,0.01464,249.51,0.91851,0.38567,-0.087175,-25.555,0.074679,0.047296,0.99609,-23.567
> ui mousemode right "translate selected models"
> view matrix models
> #4,0.38828,-0.92143,0.01464,254.36,0.91851,0.38567,-0.087175,-19.359,0.074679,0.047296,0.99609,-24.103
> view matrix models
> #4,0.38828,-0.92143,0.01464,254.68,0.91851,0.38567,-0.087175,-24.067,0.074679,0.047296,0.99609,-24.583
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 140
shifted from previous position = 8.13
rotated from previous position = 16.9 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11687805 -0.99312369 -0.00669719 314.04948602
0.99314223 0.11689416 -0.00206616 -17.87938172
0.00283482 -0.00640977 0.99997544 -9.22902795
Axis -0.00218679 -0.00479889 0.99998609
Axis point 167.09472166 167.61554898 0.00000000
Rotation angle (degrees) 83.28828390
Shift along axis -9.82985886
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.00426
rotated from previous position = 0.00464 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11689966 -0.99312119 -0.00669107 314.04624339
0.99313990 0.11691525 -0.00198824 -17.89018764
0.00275685 -0.00641274 0.99997564 -9.21651179
Axis -0.00222752 -0.00475657 0.99998621
Axis point 167.09898936 167.61214177 0.00000000
Rotation angle (degrees) 83.28704638
Shift along axis -9.83083402
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.00192
rotated from previous position = 0.00868 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11703241 -0.99310552 -0.00669681 314.02748076
0.99312446 0.11704757 -0.00191635 -17.91588759
0.00268698 -0.00642649 0.99997574 -9.20516291
Axis -0.00227067 -0.00472436 0.99998626
Axis point 167.10505958 167.61240140 0.00000000
Rotation angle (degrees) 83.27939736
Shift along axis -9.83344826
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.0113
rotated from previous position = 0.0119 degrees
atoms outside contour = 712, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11691239 -0.99311959 -0.00670647 314.05951420
0.99313813 0.11692866 -0.00208615 -17.87688171
0.00285597 -0.00641655 0.99997534 -9.23232483
Axis -0.00218015 -0.00481423 0.99998603
Axis point 167.09879632 167.62855914 0.00000000
Rotation angle (degrees) 83.28630081
Shift along axis -9.83082956
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 28
shifted from previous position = 0.0128
rotated from previous position = 0.016 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11717610 -0.99308841 -0.00672104 314.00788545
0.99310728 0.11719186 -0.00200038 -17.92549338
0.00277421 -0.00644032 0.99997541 -9.21855794
Axis -0.00223537 -0.00478056 0.99998607
Axis point 167.10260162 167.62226700 0.00000000
Rotation angle (degrees) 83.27109949
Shift along axis -9.83465833
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.0156
rotated from previous position = 0.0231 degrees
atoms outside contour = 712, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11678112 -0.99313540 -0.00665214 314.06742833
0.99315379 0.11679678 -0.00201563 -17.86564201
0.00277874 -0.00637121 0.99997584 -9.22444128
Axis -0.00219279 -0.00474792 0.99998632
Axis point 167.09466588 167.61532617 0.00000000
Rotation angle (degrees) 83.29387695
Shift along axis -9.82817475
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.018
rotated from previous position = 0.0143 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11694834 -0.99311558 -0.00667294 314.03166422
0.99313358 0.11696522 -0.00219712 -17.86860694
0.00296249 -0.00637017 0.99997532 -9.25273482
Axis -0.00210094 -0.00485100 0.99998603
Axis point 167.08112200 167.62375074 0.00000000
Rotation angle (degrees) 83.28420983
Shift along axis -9.82568727
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5779, steps = 28
shifted from previous position = 0.0289
rotated from previous position = 0.0241 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11667627 -0.99314782 -0.00663776 314.08368766
0.99316648 0.11669104 -0.00188183 -17.86380429
0.00264351 -0.00637284 0.99997620 -9.20018101
Axis -0.00226094 -0.00467254 0.99998653
Axis point 167.09997985 167.60656250 0.00000000
Rotation angle (degrees) 83.29994153
Shift along axis -9.82671282
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.0228
rotated from previous position = 0.0174 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11692769 -0.99311779 -0.00670617 314.04311563
0.99313648 0.11694360 -0.00203158 -17.88729065
0.00280184 -0.00642259 0.99997545 -9.22198221
Axis -0.00221067 -0.00478684 0.99998610
Axis point 167.09632281 167.61682145 0.00000000
Rotation angle (degrees) 83.28542545
Shift along axis -9.83047646
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.0126
rotated from previous position = 0.0144 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11675707 -0.99313865 -0.00658843 314.05891372
0.99315698 0.11677176 -0.00189086 -17.88037130
0.00264723 -0.00632258 0.99997651 -9.21055691
Axis -0.00223111 -0.00464963 0.99998670
Axis point 167.09773401 167.59904897 0.00000000
Rotation angle (degrees) 83.29527335
Shift along axis -9.82799875
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.0168
rotated from previous position = 0.013 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11689174 -0.99312217 -0.00668447 314.04258861
0.99314068 0.11690768 -0.00204494 -17.88428383
0.00281234 -0.00639958 0.99997557 -9.22639822
Axis -0.00219235 -0.00478118 0.99998617
Axis point 167.09404610 167.61171192 0.00000000
Rotation angle (degrees) 83.28749528
Shift along axis -9.82925343
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.0203
rotated from previous position = 0.015 degrees
atoms outside contour = 712, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11696081 -0.99311438 -0.00663314 314.03519089
0.99313323 0.11697504 -0.00179777 -17.91497940
0.00256130 -0.00637732 0.99997638 -9.19088759
Axis -0.00230560 -0.00462899 0.99998663
Axis point 167.10698975 167.60456373 0.00000000
Rotation angle (degrees) 83.28353608
Shift along axis -9.83187648
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.0181
rotated from previous position = 0.0189 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11693504 -0.99311690 -0.00671004 314.04336320
0.99313537 0.11695152 -0.00211714 -17.87712276
0.00288731 -0.00641641 0.99997525 -9.23599221
Axis -0.00216448 -0.00483182 0.99998598
Axis point 167.09125018 167.62342987 0.00000000
Rotation angle (degrees) 83.28499064
Shift along axis -9.82922561
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.00432
rotated from previous position = 0.00588 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11692066 -0.99311860 -0.00670853 314.04694625
0.99313735 0.11693648 -0.00201572 -17.88769294
0.00278632 -0.00642682 0.99997547 -9.21924822
Axis -0.00222078 -0.00478021 0.99998611
Axis point 167.09831328 167.61748768 0.00000000
Rotation angle (degrees) 83.28583326
Shift along axis -9.83104178
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 28
shifted from previous position = 0.0136
rotated from previous position = 0.021 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11658644 -0.99315846 -0.00662405 314.09390550
0.99317698 0.11660131 -0.00190265 -17.85683945
0.00266200 -0.00635703 0.99997625 -9.20768187
Axis -0.00224249 -0.00467491 0.99998656
Axis point 167.10035127 167.59979041 0.00000000
Rotation angle (degrees) 83.30511924
Shift along axis -9.82843005
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.002
rotated from previous position = 0.0228 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11696575 -0.99311369 -0.00664990 314.03725424
0.99313266 0.11697996 -0.00178902 -17.91515515
0.00255460 -0.00639498 0.99997629 -9.18745865
Axis -0.00231890 -0.00463406 0.99998657
Axis point 167.10814338 167.60642958 0.00000000
Rotation angle (degrees) 83.28325459
Shift along axis -9.83253636
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.00166
rotated from previous position = 0.00669 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11686040 -0.99312635 -0.00661085 314.04916747
0.99314500 0.11687470 -0.00181852 -17.89996598
0.00257866 -0.00635301 0.99997649 -9.19631700
Axis -0.00228289 -0.00462645 0.99998669
Axis point 167.10458838 167.60208457 0.00000000
Rotation angle (degrees) 83.28932392
Shift along axis -9.83031999
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.0186
rotated from previous position = 0.015 degrees
atoms outside contour = 715, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11690766 -0.99312021 -0.00669715 314.04376396
0.99313876 0.11692374 -0.00206164 -17.88102374
0.00283051 -0.00641017 0.99997545 -9.22763636
Axis -0.00218928 -0.00479672 0.99998610
Axis point 167.09306291 167.61680968 0.00000000
Rotation angle (degrees) 83.28657603
Shift along axis -9.82926643
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.0041
rotated from previous position = 0.0027 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11690513 -0.99312039 -0.00671389 314.05057563
0.99313917 0.11692098 -0.00201760 -17.88611925
0.00278871 -0.00643196 0.99997543 -9.21906424
Axis -0.00222242 -0.00478410 0.99998609
Axis point 167.09909938 167.61751187 0.00000000
Rotation angle (degrees) 83.28672927
Shift along axis -9.83131901
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 28
shifted from previous position = 0.0182
rotated from previous position = 0.0216 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11688753 -0.99312287 -0.00665294 314.05463930
0.99314223 0.11690084 -0.00164666 -17.92887802
0.00241307 -0.00641484 0.99997651 -9.16452697
Axis -0.00240054 -0.00456429 0.99998670
Axis point 167.12302346 167.59517334 0.00000000
Rotation angle (degrees) 83.28778674
Shift along axis -9.83647359
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.00433
rotated from previous position = 0.0118 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11692342 -0.99311879 -0.00663130 314.04147262
0.99313750 0.11693797 -0.00184839 -17.90252141
0.00261112 -0.00636967 0.99997630 -9.19917357
Axis -0.00227625 -0.00465313 0.99998658
Axis point 167.10299950 167.60769410 0.00000000
Rotation angle (degrees) 83.28568633
Shift along axis -9.83058523
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.0014
rotated from previous position = 0.000982 degrees
atoms outside contour = 712, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11693335 -0.99311762 -0.00663147 314.03932378
0.99313630 0.11694798 -0.00186225 -17.90266906
0.00262497 -0.00636820 0.99997628 -9.20161669
Axis -0.00226854 -0.00466019 0.99998657
Axis point 167.10218163 167.60820215 0.00000000
Rotation angle (degrees) 83.28511179
Shift along axis -9.83047342
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.016
rotated from previous position = 0.0113 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11709645 -0.99309794 -0.00670087 314.01557718
0.99311683 0.11711181 -0.00194529 -17.92085872
0.00271662 -0.00642696 0.99997566 -9.21011175
Axis -0.00225636 -0.00474136 0.99998621
Axis point 167.10271530 167.61469596 0.00000000
Rotation angle (degrees) 83.27569920
Shift along axis -9.83354685
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.0127
rotated from previous position = 0.0169 degrees
atoms outside contour = 712, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11681952 -0.99313078 -0.00666683 314.06575454
0.99314921 0.11683537 -0.00203767 -17.86897318
0.00280260 -0.00638311 0.99997570 -9.22719896
Axis -0.00218770 -0.00476735 0.99998624
Axis point 167.09622502 167.61954242 0.00000000
Rotation angle (degrees) 83.29166053
Shift along axis -9.82896518
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.00954
rotated from previous position = 0.00533 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11688888 -0.99312236 -0.00670555 314.05223395
0.99314116 0.11690453 -0.00198958 -17.88871045
0.00275981 -0.00642700 0.99997554 -9.21544528
Axis -0.00223402 -0.00476534 0.99998615
Axis point 167.10106618 167.61425111 0.00000000
Rotation angle (degrees) 83.28766924
Shift along axis -9.83167143
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.00264
rotated from previous position = 0.00523 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11696318 -0.99311353 -0.00671844 314.03983635
0.99313227 0.11697918 -0.00203962 -17.88995567
0.00281149 -0.00643374 0.99997535 -9.22215814
Axis -0.00221224 -0.00479789 0.99998604
Axis point 167.09660013 167.61994744 0.00000000
Rotation angle (degrees) 83.28337818
Shift along axis -9.83092824
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.0171
rotated from previous position = 0.0173 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11676424 -0.99313776 -0.00659501 314.06138741
0.99315623 0.11677871 -0.00185131 -17.88367108
0.00260877 -0.00633371 0.99997654 -9.20269453
Axis -0.00225663 -0.00463358 0.99998672
Axis point 167.10070201 167.60000394 0.00000000
Rotation angle (degrees) 83.29486516
Shift along axis -9.82842845
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.00499
rotated from previous position = 0.008 degrees
atoms outside contour = 712, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11688416 -0.99312351 -0.00661724 314.04312551
0.99314195 0.11689910 -0.00191686 -17.89075184
0.00267723 -0.00634780 0.99997627 -9.21194774
Axis -0.00223076 -0.00467930 0.99998656
Axis point 167.09714283 167.60761865 0.00000000
Rotation angle (degrees) 83.28794106
Shift along axis -9.82866292
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 36
shifted from previous position = 0.012
rotated from previous position = 0.00886 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11689520 -0.99312174 -0.00668802 314.04622540
0.99314025 0.11691121 -0.00205372 -17.88028265
0.00282150 -0.00640207 0.99997553 -9.22755810
Axis -0.00218918 -0.00478758 0.99998614
Axis point 167.09369935 167.61636987 0.00000000
Rotation angle (degrees) 83.28729449
Shift along axis -9.82933069
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 28
shifted from previous position = 0.0126
rotated from previous position = 0.0134 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11671912 -0.99314316 -0.00658184 314.06382597
0.99316129 0.11673415 -0.00194716 -17.86672156
0.00270213 -0.00630955 0.99997644 -9.22062611
Axis -0.00219621 -0.00467393 0.99998667
Axis point 167.09241080 167.60193259 0.00000000
Rotation angle (degrees) 83.29745476
Shift along axis -9.82674532
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 36
shifted from previous position = 0.0125
rotated from previous position = 0.0132 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11689955 -0.99312120 -0.00669159 314.04895685
0.99313978 0.11691546 -0.00203739 -17.88426247
0.00280573 -0.00640752 0.99997554 -9.22518324
Axis -0.00220015 -0.00478144 0.99998615
Axis point 167.09726813 167.61665708 0.00000000
Rotation angle (degrees) 83.28704629
Shift along axis -9.83049630
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.0135
rotated from previous position = 0.0101 degrees
atoms outside contour = 712, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11685257 -0.99312727 -0.00661087 314.05007167
0.99314574 0.11686731 -0.00188770 -17.89116767
0.00264732 -0.00634498 0.99997637 -9.20812744
Axis -0.00224401 -0.00466103 0.99998662
Axis point 167.10036967 167.60566131 0.00000000
Rotation angle (degrees) 83.28976647
Shift along axis -9.82934436
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.0154
rotated from previous position = 0.0125 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11701932 -0.99310690 -0.00672077 314.03166047
0.99312584 0.11703490 -0.00197245 -17.90844226
0.00274542 -0.00644375 0.99997547 -9.21200058
Axis -0.00225111 -0.00476584 0.99998611
Axis point 167.10314228 167.61607236 0.00000000
Rotation angle (degrees) 83.28014821
Shift along axis -9.83344487
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.0171
rotated from previous position = 0.0127 degrees
atoms outside contour = 712, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11681953 -0.99313101 -0.00663224 314.05762986
0.99314946 0.11683472 -0.00195007 -17.87504706
0.00271155 -0.00635900 0.99997611 -9.21414980
Axis -0.00221966 -0.00470410 0.99998647
Axis point 167.09508674 167.61202502 0.00000000
Rotation angle (degrees) 83.29166700
Shift along axis -9.82704001
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 40
shifted from previous position = 0.00132
rotated from previous position = 0.00664 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11685817 -0.99312658 -0.00661551 314.04927009
0.99314520 0.11687263 -0.00184185 -17.89551965
0.00260237 -0.00635493 0.99997642 -9.19932055
Axis -0.00227210 -0.00464073 0.99998665
Axis point 167.10224114 167.60396917 0.00000000
Rotation angle (degrees) 83.28945005
Shift along axis -9.82970199
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 36
shifted from previous position = 0.0021
rotated from previous position = 0.0085 degrees
atoms outside contour = 713, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11673524 -0.99314089 -0.00663724 314.07239540
0.99315945 0.11675026 -0.00192154 -17.87126831
0.00268326 -0.00636753 0.99997613 -9.20942522
Axis -0.00223830 -0.00469233 0.99998649
Axis point 167.09934113 167.60707204 0.00000000
Rotation angle (degrees) 83.29653413
Shift along axis -9.82842962
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#4) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.578, steps = 44
shifted from previous position = 0.015
rotated from previous position = 0.0165 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.11700711 -0.99310835 -0.00671918 314.03384725
0.99312733 0.11702257 -0.00195427 -17.90881202
0.00272710 -0.00644434 0.99997552 -9.20895608
Axis -0.00226056 -0.00475581 0.99998614
Axis point 167.10422269 167.61492074 0.00000000
Rotation angle (degrees) 83.28085483
Shift along axis -9.83354982
> open /Users/nezakoritnik/Desktop/JGMV-VLP/h/Coot6/mono6.cif-coot-1.pdb
Chain information for mono6.cif-coot-1.pdb #5
---
Chain | Description
Aa | No description available
> select subtract #4
Nothing selected
> select add #5
1474 atoms, 1510 bonds, 178 residues, 1 model selected
> view matrix models #5,1,0,0,47.221,0,1,0,30.038,0,0,1,-10.785
> view matrix models #5,1,0,0,53.69,0,1,0,51.656,0,0,1,-15.532
> ui mousemode right "rotate selected models"
> view matrix models
> #5,-0.34098,-0.93057,-0.13331,383.3,0.93923,-0.33123,-0.090216,108.86,0.039795,-0.15597,0.98696,1.3552
> view matrix models
> #5,-0.45193,-0.88229,-0.13163,392.18,0.89186,-0.44384,-0.08712,129.46,0.018442,-0.15677,0.98746,4.3371
> ui mousemode right "translate selected models"
> view matrix models
> #5,-0.45193,-0.88229,-0.13163,405.08,0.89186,-0.44384,-0.08712,123.27,0.018442,-0.15677,0.98746,4.7097
> view matrix models
> #5,-0.45193,-0.88229,-0.13163,408.57,0.89186,-0.44384,-0.08712,114.74,0.018442,-0.15677,0.98746,2.2155
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#5) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5776, steps = 120
shifted from previous position = 3.82
rotated from previous position = 12 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
-0.57489207 -0.81822185 -0.00348206 399.61897520
0.81822482 -0.57486973 -0.00573949 127.27029592
0.00269445 -0.00614869 0.99997747 -14.08541731
Axis -0.00025005 -0.00377431 0.99999285
Axis point 166.76047211 167.41860950 0.00000000
Rotation angle (degrees) 125.09208077
Shift along axis -14.66560016
> fitmap sel inMap #1
Fit molecule mono6.cif-coot-1.pdb (#5) to map JGMVVLP-h_P78_J310.mrc (#1)
using 1474 atoms
average map value = 0.5776, steps = 40
shifted from previous position = 0.0141
rotated from previous position = 0.0129 degrees
atoms outside contour = 714, contour level = 0.55699
Position of mono6.cif-coot-1.pdb (#5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
-0.57495261 -0.81817975 -0.00337601 399.60970179
0.81818155 -0.57492942 -0.00592507 127.30065602
0.00290681 -0.00616883 0.99997675 -14.11616846
Axis -0.00014896 -0.00383948 0.99999262
Axis point 166.75188364 167.42189444 0.00000000
Rotation angle (degrees) 125.09631561
Shift along axis -14.66435781
[deleted to fit within ticket limits
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.00281
rotated from previous position = 0.000537 degrees
atoms outside contour = 5705, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958338 0.02568693 0.01316274 -6.73078049
-0.02532611 0.99931773 -0.02688239 9.71580676
-0.01384429 0.02653783 0.99955194 -3.40976301
Axis 0.67923604 0.34339340 -0.64862884
Axis point 0.00000000 110.47055979 346.14506403
Rotation angle (degrees) 2.25366606
Shift along axis 0.97622584
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958338 0.02568693 0.01316274 -6.73078049
-0.02532611 0.99931773 -0.02688239 9.71580676
-0.01384429 0.02653783 0.99955194 -3.40976301
Axis 0.67923604 0.34339340 -0.64862884
Axis point 0.00000000 110.47055979 346.14506403
Rotation angle (degrees) 2.25366606
Shift along axis 0.97622584
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958338 0.02568693 0.01316274 -6.73078049
-0.02532611 0.99931773 -0.02688239 9.71580676
-0.01384429 0.02653783 0.99955194 -3.40976301
Axis 0.67923604 0.34339340 -0.64862884
Axis point 0.00000000 110.47055979 346.14506403
Rotation angle (degrees) 2.25366606
Shift along axis 0.97622584
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958338 0.02568693 0.01316274 -6.73078049
-0.02532611 0.99931773 -0.02688239 9.71580676
-0.01384429 0.02653783 0.99955194 -3.40976301
Axis 0.67923604 0.34339340 -0.64862884
Axis point 0.00000000 110.47055979 346.14506403
Rotation angle (degrees) 2.25366606
Shift along axis 0.97622584
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958338 0.02568693 0.01316274 -6.73078049
-0.02532611 0.99931773 -0.02688239 9.71580676
-0.01384429 0.02653783 0.99955194 -3.40976301
Axis 0.67923604 0.34339340 -0.64862884
Axis point 0.00000000 110.47055979 346.14506403
Rotation angle (degrees) 2.25366606
Shift along axis 0.97622584
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958338 0.02568693 0.01316274 -6.73078049
-0.02532611 0.99931773 -0.02688239 9.71580676
-0.01384429 0.02653783 0.99955194 -3.40976301
Axis 0.67923604 0.34339340 -0.64862884
Axis point 0.00000000 110.47055979 346.14506403
Rotation angle (degrees) 2.25366606
Shift along axis 0.97622584
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958338 0.02568693 0.01316274 -6.73078049
-0.02532611 0.99931773 -0.02688239 9.71580676
-0.01384429 0.02653783 0.99955194 -3.40976301
Axis 0.67923604 0.34339340 -0.64862884
Axis point 0.00000000 110.47055979 346.14506403
Rotation angle (degrees) 2.25366606
Shift along axis 0.97622584
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958338 0.02568693 0.01316274 -6.73078049
-0.02532611 0.99931773 -0.02688239 9.71580676
-0.01384429 0.02653783 0.99955194 -3.40976301
Axis 0.67923604 0.34339340 -0.64862884
Axis point 0.00000000 110.47055979 346.14506403
Rotation angle (degrees) 2.25366606
Shift along axis 0.97622584
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.00189
rotated from previous position = 0.000343 degrees
atoms outside contour = 5703, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958335 0.02568630 0.01316599 -6.73114575
-0.02532533 0.99931762 -0.02688737 9.71834873
-0.01384765 0.02654274 0.99955176 -3.41026446
Axis 0.67929206 0.34344215 -0.64854436
Axis point 0.00000000 110.45622225 346.16390648
Rotation angle (degrees) 2.25389747
Shift along axis 0.97698454
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958335 0.02568630 0.01316599 -6.73114575
-0.02532533 0.99931762 -0.02688737 9.71834873
-0.01384765 0.02654274 0.99955176 -3.41026446
Axis 0.67929206 0.34344215 -0.64854436
Axis point 0.00000000 110.45622225 346.16390648
Rotation angle (degrees) 2.25389747
Shift along axis 0.97698454
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958335 0.02568630 0.01316599 -6.73114575
-0.02532533 0.99931762 -0.02688737 9.71834873
-0.01384765 0.02654274 0.99955176 -3.41026446
Axis 0.67929206 0.34344215 -0.64854436
Axis point 0.00000000 110.45622225 346.16390648
Rotation angle (degrees) 2.25389747
Shift along axis 0.97698454
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958335 0.02568630 0.01316599 -6.73114575
-0.02532533 0.99931762 -0.02688737 9.71834873
-0.01384765 0.02654274 0.99955176 -3.41026446
Axis 0.67929206 0.34344215 -0.64854436
Axis point 0.00000000 110.45622225 346.16390648
Rotation angle (degrees) 2.25389747
Shift along axis 0.97698454
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958335 0.02568630 0.01316599 -6.73114575
-0.02532533 0.99931762 -0.02688737 9.71834873
-0.01384765 0.02654274 0.99955176 -3.41026446
Axis 0.67929206 0.34344215 -0.64854436
Axis point 0.00000000 110.45622225 346.16390648
Rotation angle (degrees) 2.25389747
Shift along axis 0.97698454
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958335 0.02568630 0.01316599 -6.73114575
-0.02532533 0.99931762 -0.02688737 9.71834873
-0.01384765 0.02654274 0.99955176 -3.41026446
Axis 0.67929206 0.34344215 -0.64854436
Axis point 0.00000000 110.45622225 346.16390648
Rotation angle (degrees) 2.25389747
Shift along axis 0.97698454
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958335 0.02568630 0.01316599 -6.73114575
-0.02532533 0.99931762 -0.02688737 9.71834873
-0.01384765 0.02654274 0.99955176 -3.41026446
Axis 0.67929206 0.34344215 -0.64854436
Axis point 0.00000000 110.45622225 346.16390648
Rotation angle (degrees) 2.25389747
Shift along axis 0.97698454
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958335 0.02568630 0.01316599 -6.73114575
-0.02532533 0.99931762 -0.02688737 9.71834873
-0.01384765 0.02654274 0.99955176 -3.41026446
Axis 0.67929206 0.34344215 -0.64854436
Axis point 0.00000000 110.45622225 346.16390648
Rotation angle (degrees) 2.25389747
Shift along axis 0.97698454
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.00134
rotated from previous position = 0.000247 degrees
atoms outside contour = 5705, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958332 0.02568622 0.01316798 -6.73110378
-0.02532514 0.99931752 -0.02689120 9.72020864
-0.01384972 0.02654651 0.99955163 -3.41073992
Axis 0.67933356 0.34346592 -0.64848830
Axis point 0.00000000 110.44434557 346.17344585
Rotation angle (degrees) 2.25408058
Shift along axis 0.97772063
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958332 0.02568622 0.01316798 -6.73110378
-0.02532514 0.99931752 -0.02689120 9.72020864
-0.01384972 0.02654651 0.99955163 -3.41073992
Axis 0.67933356 0.34346592 -0.64848830
Axis point 0.00000000 110.44434557 346.17344585
Rotation angle (degrees) 2.25408058
Shift along axis 0.97772063
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958332 0.02568622 0.01316798 -6.73110378
-0.02532514 0.99931752 -0.02689120 9.72020864
-0.01384972 0.02654651 0.99955163 -3.41073992
Axis 0.67933356 0.34346592 -0.64848830
Axis point 0.00000000 110.44434557 346.17344585
Rotation angle (degrees) 2.25408058
Shift along axis 0.97772063
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958332 0.02568622 0.01316798 -6.73110378
-0.02532514 0.99931752 -0.02689120 9.72020864
-0.01384972 0.02654651 0.99955163 -3.41073992
Axis 0.67933356 0.34346592 -0.64848830
Axis point 0.00000000 110.44434557 346.17344585
Rotation angle (degrees) 2.25408058
Shift along axis 0.97772063
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958332 0.02568622 0.01316798 -6.73110378
-0.02532514 0.99931752 -0.02689120 9.72020864
-0.01384972 0.02654651 0.99955163 -3.41073992
Axis 0.67933356 0.34346592 -0.64848830
Axis point 0.00000000 110.44434557 346.17344585
Rotation angle (degrees) 2.25408058
Shift along axis 0.97772063
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958332 0.02568622 0.01316798 -6.73110378
-0.02532514 0.99931752 -0.02689120 9.72020864
-0.01384972 0.02654651 0.99955163 -3.41073992
Axis 0.67933356 0.34346592 -0.64848830
Axis point 0.00000000 110.44434557 346.17344585
Rotation angle (degrees) 2.25408058
Shift along axis 0.97772063
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958332 0.02568622 0.01316798 -6.73110378
-0.02532514 0.99931752 -0.02689120 9.72020864
-0.01384972 0.02654651 0.99955163 -3.41073992
Axis 0.67933356 0.34346592 -0.64848830
Axis point 0.00000000 110.44434557 346.17344585
Rotation angle (degrees) 2.25408058
Shift along axis 0.97772063
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958332 0.02568622 0.01316798 -6.73110378
-0.02532514 0.99931752 -0.02689120 9.72020864
-0.01384972 0.02654651 0.99955163 -3.41073992
Axis 0.67933356 0.34346592 -0.64848830
Axis point 0.00000000 110.44434557 346.17344585
Rotation angle (degrees) 2.25408058
Shift along axis 0.97772063
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.0109
rotated from previous position = 0.00146 degrees
atoms outside contour = 5697, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958390 0.02566323 0.01316943 -6.72285620
-0.02530197 0.99931782 -0.02690193 9.72781987
-0.01385084 0.02655753 0.99955133 -3.41219265
Axis 0.67973336 0.34356083 -0.64801892
Axis point 0.00000000 110.33438575 346.24479678
Rotation angle (degrees) 2.25367158
Shift along axis 0.98351358
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958390 0.02566323 0.01316943 -6.72285620
-0.02530197 0.99931782 -0.02690193 9.72781987
-0.01385084 0.02655753 0.99955133 -3.41219265
Axis 0.67973336 0.34356083 -0.64801892
Axis point 0.00000000 110.33438575 346.24479678
Rotation angle (degrees) 2.25367158
Shift along axis 0.98351358
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958390 0.02566323 0.01316943 -6.72285620
-0.02530197 0.99931782 -0.02690193 9.72781987
-0.01385084 0.02655753 0.99955133 -3.41219265
Axis 0.67973336 0.34356083 -0.64801892
Axis point 0.00000000 110.33438575 346.24479678
Rotation angle (degrees) 2.25367158
Shift along axis 0.98351358
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958390 0.02566323 0.01316943 -6.72285620
-0.02530197 0.99931782 -0.02690193 9.72781987
-0.01385084 0.02655753 0.99955133 -3.41219265
Axis 0.67973336 0.34356083 -0.64801892
Axis point 0.00000000 110.33438575 346.24479678
Rotation angle (degrees) 2.25367158
Shift along axis 0.98351358
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958390 0.02566323 0.01316943 -6.72285620
-0.02530197 0.99931782 -0.02690193 9.72781987
-0.01385084 0.02655753 0.99955133 -3.41219265
Axis 0.67973336 0.34356083 -0.64801892
Axis point 0.00000000 110.33438575 346.24479678
Rotation angle (degrees) 2.25367158
Shift along axis 0.98351358
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958390 0.02566323 0.01316943 -6.72285620
-0.02530197 0.99931782 -0.02690193 9.72781987
-0.01385084 0.02655753 0.99955133 -3.41219265
Axis 0.67973336 0.34356083 -0.64801892
Axis point 0.00000000 110.33438575 346.24479678
Rotation angle (degrees) 2.25367158
Shift along axis 0.98351358
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958390 0.02566323 0.01316943 -6.72285620
-0.02530197 0.99931782 -0.02690193 9.72781987
-0.01385084 0.02655753 0.99955133 -3.41219265
Axis 0.67973336 0.34356083 -0.64801892
Axis point 0.00000000 110.33438575 346.24479678
Rotation angle (degrees) 2.25367158
Shift along axis 0.98351358
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958390 0.02566323 0.01316943 -6.72285620
-0.02530197 0.99931782 -0.02690193 9.72781987
-0.01385084 0.02655753 0.99955133 -3.41219265
Axis 0.67973336 0.34356083 -0.64801892
Axis point 0.00000000 110.33438575 346.24479678
Rotation angle (degrees) 2.25367158
Shift along axis 0.98351358
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.0134
rotated from previous position = 0.00994 degrees
atoms outside contour = 5702, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957961 0.02582841 0.01317156 -6.75550643
-0.02546775 0.99931496 -0.02685154 9.73622804
-0.01385607 0.02650480 0.99955265 -3.40521856
Axis 0.67715195 0.34301097 -0.65100592
Axis point 0.00000000 110.21786389 347.23918146
Rotation angle (degrees) 2.25790119
Shift along axis 0.98194609
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957961 0.02582841 0.01317156 -6.75550643
-0.02546775 0.99931496 -0.02685154 9.73622804
-0.01385607 0.02650480 0.99955265 -3.40521856
Axis 0.67715195 0.34301097 -0.65100592
Axis point 0.00000000 110.21786389 347.23918146
Rotation angle (degrees) 2.25790119
Shift along axis 0.98194609
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957961 0.02582841 0.01317156 -6.75550643
-0.02546775 0.99931496 -0.02685154 9.73622804
-0.01385607 0.02650480 0.99955265 -3.40521856
Axis 0.67715195 0.34301097 -0.65100592
Axis point 0.00000000 110.21786389 347.23918146
Rotation angle (degrees) 2.25790119
Shift along axis 0.98194609
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957961 0.02582841 0.01317156 -6.75550643
-0.02546775 0.99931496 -0.02685154 9.73622804
-0.01385607 0.02650480 0.99955265 -3.40521856
Axis 0.67715195 0.34301097 -0.65100592
Axis point 0.00000000 110.21786389 347.23918146
Rotation angle (degrees) 2.25790119
Shift along axis 0.98194609
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957961 0.02582841 0.01317156 -6.75550643
-0.02546775 0.99931496 -0.02685154 9.73622804
-0.01385607 0.02650480 0.99955265 -3.40521856
Axis 0.67715195 0.34301097 -0.65100592
Axis point 0.00000000 110.21786389 347.23918146
Rotation angle (degrees) 2.25790119
Shift along axis 0.98194609
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957961 0.02582841 0.01317156 -6.75550643
-0.02546775 0.99931496 -0.02685154 9.73622804
-0.01385607 0.02650480 0.99955265 -3.40521856
Axis 0.67715195 0.34301097 -0.65100592
Axis point 0.00000000 110.21786389 347.23918146
Rotation angle (degrees) 2.25790119
Shift along axis 0.98194609
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957961 0.02582841 0.01317156 -6.75550643
-0.02546775 0.99931496 -0.02685154 9.73622804
-0.01385607 0.02650480 0.99955265 -3.40521856
Axis 0.67715195 0.34301097 -0.65100592
Axis point 0.00000000 110.21786389 347.23918146
Rotation angle (degrees) 2.25790119
Shift along axis 0.98194609
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957961 0.02582841 0.01317156 -6.75550643
-0.02546775 0.99931496 -0.02685154 9.73622804
-0.01385607 0.02650480 0.99955265 -3.40521856
Axis 0.67715195 0.34301097 -0.65100592
Axis point 0.00000000 110.21786389 347.23918146
Rotation angle (degrees) 2.25790119
Shift along axis 0.98194609
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 28
shifted from previous position = 0.015
rotated from previous position = 0.0114 degrees
atoms outside contour = 5697, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958438 0.02563996 0.01317814 -6.72212092
-0.02527833 0.99931812 -0.02691268 9.72793852
-0.01385919 0.02656837 0.99955092 -3.41221135
Axis 0.68009292 0.34382078 -0.64750358
Axis point 0.00000000 110.33890475 346.11664447
Rotation angle (degrees) 2.25338927
Shift along axis 0.98241960
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958438 0.02563996 0.01317814 -6.72212092
-0.02527833 0.99931812 -0.02691268 9.72793852
-0.01385919 0.02656837 0.99955092 -3.41221135
Axis 0.68009292 0.34382078 -0.64750358
Axis point 0.00000000 110.33890475 346.11664447
Rotation angle (degrees) 2.25338927
Shift along axis 0.98241960
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958438 0.02563996 0.01317814 -6.72212092
-0.02527833 0.99931812 -0.02691268 9.72793852
-0.01385919 0.02656837 0.99955092 -3.41221135
Axis 0.68009292 0.34382078 -0.64750358
Axis point 0.00000000 110.33890475 346.11664447
Rotation angle (degrees) 2.25338927
Shift along axis 0.98241960
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958438 0.02563996 0.01317814 -6.72212092
-0.02527833 0.99931812 -0.02691268 9.72793852
-0.01385919 0.02656837 0.99955092 -3.41221135
Axis 0.68009292 0.34382078 -0.64750358
Axis point 0.00000000 110.33890475 346.11664447
Rotation angle (degrees) 2.25338927
Shift along axis 0.98241960
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958438 0.02563996 0.01317814 -6.72212092
-0.02527833 0.99931812 -0.02691268 9.72793852
-0.01385919 0.02656837 0.99955092 -3.41221135
Axis 0.68009292 0.34382078 -0.64750358
Axis point 0.00000000 110.33890475 346.11664447
Rotation angle (degrees) 2.25338927
Shift along axis 0.98241960
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958438 0.02563996 0.01317814 -6.72212092
-0.02527833 0.99931812 -0.02691268 9.72793852
-0.01385919 0.02656837 0.99955092 -3.41221135
Axis 0.68009292 0.34382078 -0.64750358
Axis point 0.00000000 110.33890475 346.11664447
Rotation angle (degrees) 2.25338927
Shift along axis 0.98241960
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958438 0.02563996 0.01317814 -6.72212092
-0.02527833 0.99931812 -0.02691268 9.72793852
-0.01385919 0.02656837 0.99955092 -3.41221135
Axis 0.68009292 0.34382078 -0.64750358
Axis point 0.00000000 110.33890475 346.11664447
Rotation angle (degrees) 2.25338927
Shift along axis 0.98241960
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958438 0.02563996 0.01317814 -6.72212092
-0.02527833 0.99931812 -0.02691268 9.72793852
-0.01385919 0.02656837 0.99955092 -3.41221135
Axis 0.68009292 0.34382078 -0.64750358
Axis point 0.00000000 110.33890475 346.11664447
Rotation angle (degrees) 2.25338927
Shift along axis 0.98241960
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 48
shifted from previous position = 0.0215
rotated from previous position = 0.0145 degrees
atoms outside contour = 5704, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957866 0.02586934 0.01316384 -6.76314900
-0.02550942 0.99931496 -0.02681180 9.73111719
-0.01384843 0.02646470 0.99955382 -3.40207716
Axis 0.67618574 0.34283984 -0.65209945
Axis point 0.00000000 110.22535458 347.57418840
Rotation angle (degrees) 2.25774427
Shift along axis 0.98156241
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957866 0.02586934 0.01316384 -6.76314900
-0.02550942 0.99931496 -0.02681180 9.73111719
-0.01384843 0.02646470 0.99955382 -3.40207716
Axis 0.67618574 0.34283984 -0.65209945
Axis point 0.00000000 110.22535458 347.57418840
Rotation angle (degrees) 2.25774427
Shift along axis 0.98156241
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957866 0.02586934 0.01316384 -6.76314900
-0.02550942 0.99931496 -0.02681180 9.73111719
-0.01384843 0.02646470 0.99955382 -3.40207716
Axis 0.67618574 0.34283984 -0.65209945
Axis point 0.00000000 110.22535458 347.57418840
Rotation angle (degrees) 2.25774427
Shift along axis 0.98156241
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957866 0.02586934 0.01316384 -6.76314900
-0.02550942 0.99931496 -0.02681180 9.73111719
-0.01384843 0.02646470 0.99955382 -3.40207716
Axis 0.67618574 0.34283984 -0.65209945
Axis point 0.00000000 110.22535458 347.57418840
Rotation angle (degrees) 2.25774427
Shift along axis 0.98156241
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957866 0.02586934 0.01316384 -6.76314900
-0.02550942 0.99931496 -0.02681180 9.73111719
-0.01384843 0.02646470 0.99955382 -3.40207716
Axis 0.67618574 0.34283984 -0.65209945
Axis point 0.00000000 110.22535458 347.57418840
Rotation angle (degrees) 2.25774427
Shift along axis 0.98156241
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957866 0.02586934 0.01316384 -6.76314900
-0.02550942 0.99931496 -0.02681180 9.73111719
-0.01384843 0.02646470 0.99955382 -3.40207716
Axis 0.67618574 0.34283984 -0.65209945
Axis point 0.00000000 110.22535458 347.57418840
Rotation angle (degrees) 2.25774427
Shift along axis 0.98156241
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957866 0.02586934 0.01316384 -6.76314900
-0.02550942 0.99931496 -0.02681180 9.73111719
-0.01384843 0.02646470 0.99955382 -3.40207716
Axis 0.67618574 0.34283984 -0.65209945
Axis point 0.00000000 110.22535458 347.57418840
Rotation angle (degrees) 2.25774427
Shift along axis 0.98156241
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957866 0.02586934 0.01316384 -6.76314900
-0.02550942 0.99931496 -0.02681180 9.73111719
-0.01384843 0.02646470 0.99955382 -3.40207716
Axis 0.67618574 0.34283984 -0.65209945
Axis point 0.00000000 110.22535458 347.57418840
Rotation angle (degrees) 2.25774427
Shift along axis 0.98156241
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.0229
rotated from previous position = 0.0131 degrees
atoms outside contour = 5695, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958373 0.02566599 0.01317648 -6.72486013
-0.02530440 0.99931749 -0.02691176 9.73328076
-0.01385820 0.02656713 0.99955097 -3.41172981
Axis 0.67979430 0.34365009 -0.64790765
Axis point 0.00000000 110.27987420 346.31437167
Rotation angle (degrees) 2.25428875
Shift along axis 0.98380704
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958373 0.02566599 0.01317648 -6.72486013
-0.02530440 0.99931749 -0.02691176 9.73328076
-0.01385820 0.02656713 0.99955097 -3.41172981
Axis 0.67979430 0.34365009 -0.64790765
Axis point 0.00000000 110.27987420 346.31437167
Rotation angle (degrees) 2.25428875
Shift along axis 0.98380704
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958373 0.02566599 0.01317648 -6.72486013
-0.02530440 0.99931749 -0.02691176 9.73328076
-0.01385820 0.02656713 0.99955097 -3.41172981
Axis 0.67979430 0.34365009 -0.64790765
Axis point 0.00000000 110.27987420 346.31437167
Rotation angle (degrees) 2.25428875
Shift along axis 0.98380704
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958373 0.02566599 0.01317648 -6.72486013
-0.02530440 0.99931749 -0.02691176 9.73328076
-0.01385820 0.02656713 0.99955097 -3.41172981
Axis 0.67979430 0.34365009 -0.64790765
Axis point 0.00000000 110.27987420 346.31437167
Rotation angle (degrees) 2.25428875
Shift along axis 0.98380704
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958373 0.02566599 0.01317648 -6.72486013
-0.02530440 0.99931749 -0.02691176 9.73328076
-0.01385820 0.02656713 0.99955097 -3.41172981
Axis 0.67979430 0.34365009 -0.64790765
Axis point 0.00000000 110.27987420 346.31437167
Rotation angle (degrees) 2.25428875
Shift along axis 0.98380704
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958373 0.02566599 0.01317648 -6.72486013
-0.02530440 0.99931749 -0.02691176 9.73328076
-0.01385820 0.02656713 0.99955097 -3.41172981
Axis 0.67979430 0.34365009 -0.64790765
Axis point 0.00000000 110.27987420 346.31437167
Rotation angle (degrees) 2.25428875
Shift along axis 0.98380704
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958373 0.02566599 0.01317648 -6.72486013
-0.02530440 0.99931749 -0.02691176 9.73328076
-0.01385820 0.02656713 0.99955097 -3.41172981
Axis 0.67979430 0.34365009 -0.64790765
Axis point 0.00000000 110.27987420 346.31437167
Rotation angle (degrees) 2.25428875
Shift along axis 0.98380704
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958373 0.02566599 0.01317648 -6.72486013
-0.02530440 0.99931749 -0.02691176 9.73328076
-0.01385820 0.02656713 0.99955097 -3.41172981
Axis 0.67979430 0.34365009 -0.64790765
Axis point 0.00000000 110.27987420 346.31437167
Rotation angle (degrees) 2.25428875
Shift along axis 0.98380704
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 28
shifted from previous position = 0.0144
rotated from previous position = 0.0138 degrees
atoms outside contour = 5707, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957807 0.02589055 0.01316663 -6.76339689
-0.02553035 0.99931404 -0.02682619 9.74438061
-0.01385215 0.02647872 0.99955340 -3.40086299
Axis 0.67612642 0.34270972 -0.65222934
Axis point 0.00000000 110.04857640 347.84728708
Rotation angle (degrees) 2.25914699
Shift along axis 0.98472522
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957807 0.02589055 0.01316663 -6.76339689
-0.02553035 0.99931404 -0.02682619 9.74438061
-0.01385215 0.02647872 0.99955340 -3.40086299
Axis 0.67612642 0.34270972 -0.65222934
Axis point 0.00000000 110.04857640 347.84728708
Rotation angle (degrees) 2.25914699
Shift along axis 0.98472522
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957807 0.02589055 0.01316663 -6.76339689
-0.02553035 0.99931404 -0.02682619 9.74438061
-0.01385215 0.02647872 0.99955340 -3.40086299
Axis 0.67612642 0.34270972 -0.65222934
Axis point 0.00000000 110.04857640 347.84728708
Rotation angle (degrees) 2.25914699
Shift along axis 0.98472522
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957807 0.02589055 0.01316663 -6.76339689
-0.02553035 0.99931404 -0.02682619 9.74438061
-0.01385215 0.02647872 0.99955340 -3.40086299
Axis 0.67612642 0.34270972 -0.65222934
Axis point 0.00000000 110.04857640 347.84728708
Rotation angle (degrees) 2.25914699
Shift along axis 0.98472522
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957807 0.02589055 0.01316663 -6.76339689
-0.02553035 0.99931404 -0.02682619 9.74438061
-0.01385215 0.02647872 0.99955340 -3.40086299
Axis 0.67612642 0.34270972 -0.65222934
Axis point 0.00000000 110.04857640 347.84728708
Rotation angle (degrees) 2.25914699
Shift along axis 0.98472522
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957807 0.02589055 0.01316663 -6.76339689
-0.02553035 0.99931404 -0.02682619 9.74438061
-0.01385215 0.02647872 0.99955340 -3.40086299
Axis 0.67612642 0.34270972 -0.65222934
Axis point 0.00000000 110.04857640 347.84728708
Rotation angle (degrees) 2.25914699
Shift along axis 0.98472522
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957807 0.02589055 0.01316663 -6.76339689
-0.02553035 0.99931404 -0.02682619 9.74438061
-0.01385215 0.02647872 0.99955340 -3.40086299
Axis 0.67612642 0.34270972 -0.65222934
Axis point 0.00000000 110.04857640 347.84728708
Rotation angle (degrees) 2.25914699
Shift along axis 0.98472522
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99957807 0.02589055 0.01316663 -6.76339689
-0.02553035 0.99931404 -0.02682619 9.74438061
-0.01385215 0.02647872 0.99955340 -3.40086299
Axis 0.67612642 0.34270972 -0.65222934
Axis point 0.00000000 110.04857640 347.84728708
Rotation angle (degrees) 2.25914699
Shift along axis 0.98472522
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.0025
rotated from previous position = 0.0127 degrees
atoms outside contour = 5703, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958361 0.02567786 0.01316291 -6.72977120
-0.02531702 0.99931792 -0.02688375 9.71559424
-0.01384425 0.02653931 0.99955190 -3.41021412
Axis 0.67935688 0.34343791 -0.64847871
Axis point 0.00000000 110.48665706 346.11823608
Rotation angle (degrees) 2.25338506
Shift along axis 0.97623830
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958361 0.02567786 0.01316291 -6.72977120
-0.02531702 0.99931792 -0.02688375 9.71559424
-0.01384425 0.02653931 0.99955190 -3.41021412
Axis 0.67935688 0.34343791 -0.64847871
Axis point 0.00000000 110.48665706 346.11823608
Rotation angle (degrees) 2.25338506
Shift along axis 0.97623830
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958361 0.02567786 0.01316291 -6.72977120
-0.02531702 0.99931792 -0.02688375 9.71559424
-0.01384425 0.02653931 0.99955190 -3.41021412
Axis 0.67935688 0.34343791 -0.64847871
Axis point 0.00000000 110.48665706 346.11823608
Rotation angle (degrees) 2.25338506
Shift along axis 0.97623830
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958361 0.02567786 0.01316291 -6.72977120
-0.02531702 0.99931792 -0.02688375 9.71559424
-0.01384425 0.02653931 0.99955190 -3.41021412
Axis 0.67935688 0.34343791 -0.64847871
Axis point 0.00000000 110.48665706 346.11823608
Rotation angle (degrees) 2.25338506
Shift along axis 0.97623830
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958361 0.02567786 0.01316291 -6.72977120
-0.02531702 0.99931792 -0.02688375 9.71559424
-0.01384425 0.02653931 0.99955190 -3.41021412
Axis 0.67935688 0.34343791 -0.64847871
Axis point 0.00000000 110.48665706 346.11823608
Rotation angle (degrees) 2.25338506
Shift along axis 0.97623830
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958361 0.02567786 0.01316291 -6.72977120
-0.02531702 0.99931792 -0.02688375 9.71559424
-0.01384425 0.02653931 0.99955190 -3.41021412
Axis 0.67935688 0.34343791 -0.64847871
Axis point 0.00000000 110.48665706 346.11823608
Rotation angle (degrees) 2.25338506
Shift along axis 0.97623830
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958361 0.02567786 0.01316291 -6.72977120
-0.02531702 0.99931792 -0.02688375 9.71559424
-0.01384425 0.02653931 0.99955190 -3.41021412
Axis 0.67935688 0.34343791 -0.64847871
Axis point 0.00000000 110.48665706 346.11823608
Rotation angle (degrees) 2.25338506
Shift along axis 0.97623830
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958361 0.02567786 0.01316291 -6.72977120
-0.02531702 0.99931792 -0.02688375 9.71559424
-0.01384425 0.02653931 0.99955190 -3.41021412
Axis 0.67935688 0.34343791 -0.64847871
Axis point 0.00000000 110.48665706 346.11823608
Rotation angle (degrees) 2.25338506
Shift along axis 0.97623830
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.00172
rotated from previous position = 0.000634 degrees
atoms outside contour = 5705, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958334 0.02568604 0.01316730 -6.73121785
-0.02532499 0.99931756 -0.02688987 9.71956653
-0.01384901 0.02654521 0.99955168 -3.41057857
Axis 0.67932156 0.34345899 -0.64850454
Axis point 0.00000000 110.45062607 346.17111523
Rotation angle (degrees) 2.25400959
Shift along axis 0.97738678
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958334 0.02568604 0.01316730 -6.73121785
-0.02532499 0.99931756 -0.02688987 9.71956653
-0.01384901 0.02654521 0.99955168 -3.41057857
Axis 0.67932156 0.34345899 -0.64850454
Axis point 0.00000000 110.45062607 346.17111523
Rotation angle (degrees) 2.25400959
Shift along axis 0.97738678
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958334 0.02568604 0.01316730 -6.73121785
-0.02532499 0.99931756 -0.02688987 9.71956653
-0.01384901 0.02654521 0.99955168 -3.41057857
Axis 0.67932156 0.34345899 -0.64850454
Axis point 0.00000000 110.45062607 346.17111523
Rotation angle (degrees) 2.25400959
Shift along axis 0.97738678
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958334 0.02568604 0.01316730 -6.73121785
-0.02532499 0.99931756 -0.02688987 9.71956653
-0.01384901 0.02654521 0.99955168 -3.41057857
Axis 0.67932156 0.34345899 -0.64850454
Axis point 0.00000000 110.45062607 346.17111523
Rotation angle (degrees) 2.25400959
Shift along axis 0.97738678
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958334 0.02568604 0.01316730 -6.73121785
-0.02532499 0.99931756 -0.02688987 9.71956653
-0.01384901 0.02654521 0.99955168 -3.41057857
Axis 0.67932156 0.34345899 -0.64850454
Axis point 0.00000000 110.45062607 346.17111523
Rotation angle (degrees) 2.25400959
Shift along axis 0.97738678
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958334 0.02568604 0.01316730 -6.73121785
-0.02532499 0.99931756 -0.02688987 9.71956653
-0.01384901 0.02654521 0.99955168 -3.41057857
Axis 0.67932156 0.34345899 -0.64850454
Axis point 0.00000000 110.45062607 346.17111523
Rotation angle (degrees) 2.25400959
Shift along axis 0.97738678
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958334 0.02568604 0.01316730 -6.73121785
-0.02532499 0.99931756 -0.02688987 9.71956653
-0.01384901 0.02654521 0.99955168 -3.41057857
Axis 0.67932156 0.34345899 -0.64850454
Axis point 0.00000000 110.45062607 346.17111523
Rotation angle (degrees) 2.25400959
Shift along axis 0.97738678
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958334 0.02568604 0.01316730 -6.73121785
-0.02532499 0.99931756 -0.02688987 9.71956653
-0.01384901 0.02654521 0.99955168 -3.41057857
Axis 0.67932156 0.34345899 -0.64850454
Axis point 0.00000000 110.45062607 346.17111523
Rotation angle (degrees) 2.25400959
Shift along axis 0.97738678
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.00174
rotated from previous position = 0.000236 degrees
atoms outside contour = 5704, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958345 0.02568203 0.01316660 -6.72876615
-0.02532100 0.99931764 -0.02689044 9.71924098
-0.01384822 0.02654585 0.99955167 -3.41100311
Axis 0.67937907 0.34346144 -0.64844299
Axis point 0.00000000 110.43503937 346.13633819
Rotation angle (degrees) 2.25386956
Shift along axis 0.97864262
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958345 0.02568203 0.01316660 -6.72876615
-0.02532100 0.99931764 -0.02689044 9.71924098
-0.01384822 0.02654585 0.99955167 -3.41100311
Axis 0.67937907 0.34346144 -0.64844299
Axis point 0.00000000 110.43503937 346.13633819
Rotation angle (degrees) 2.25386956
Shift along axis 0.97864262
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958345 0.02568203 0.01316660 -6.72876615
-0.02532100 0.99931764 -0.02689044 9.71924098
-0.01384822 0.02654585 0.99955167 -3.41100311
Axis 0.67937907 0.34346144 -0.64844299
Axis point 0.00000000 110.43503937 346.13633819
Rotation angle (degrees) 2.25386956
Shift along axis 0.97864262
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958345 0.02568203 0.01316660 -6.72876615
-0.02532100 0.99931764 -0.02689044 9.71924098
-0.01384822 0.02654585 0.99955167 -3.41100311
Axis 0.67937907 0.34346144 -0.64844299
Axis point 0.00000000 110.43503937 346.13633819
Rotation angle (degrees) 2.25386956
Shift along axis 0.97864262
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958345 0.02568203 0.01316660 -6.72876615
-0.02532100 0.99931764 -0.02689044 9.71924098
-0.01384822 0.02654585 0.99955167 -3.41100311
Axis 0.67937907 0.34346144 -0.64844299
Axis point 0.00000000 110.43503937 346.13633819
Rotation angle (degrees) 2.25386956
Shift along axis 0.97864262
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958345 0.02568203 0.01316660 -6.72876615
-0.02532100 0.99931764 -0.02689044 9.71924098
-0.01384822 0.02654585 0.99955167 -3.41100311
Axis 0.67937907 0.34346144 -0.64844299
Axis point 0.00000000 110.43503937 346.13633819
Rotation angle (degrees) 2.25386956
Shift along axis 0.97864262
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958345 0.02568203 0.01316660 -6.72876615
-0.02532100 0.99931764 -0.02689044 9.71924098
-0.01384822 0.02654585 0.99955167 -3.41100311
Axis 0.67937907 0.34346144 -0.64844299
Axis point 0.00000000 110.43503937 346.13633819
Rotation angle (degrees) 2.25386956
Shift along axis 0.97864262
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958345 0.02568203 0.01316660 -6.72876615
-0.02532100 0.99931764 -0.02689044 9.71924098
-0.01384822 0.02654585 0.99955167 -3.41100311
Axis 0.67937907 0.34346144 -0.64844299
Axis point 0.00000000 110.43503937 346.13633819
Rotation angle (degrees) 2.25386956
Shift along axis 0.97864262
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 44
shifted from previous position = 0.0113
rotated from previous position = 0.000923 degrees
atoms outside contour = 5702, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958347 0.02568321 0.01316290 -6.72584482
-0.02532249 0.99931802 -0.02687483 9.72797036
-0.01384416 0.02653032 0.99955214 -3.40883193
Axis 0.67917390 0.34345917 -0.64865908
Axis point 0.00000000 110.27288271 346.59549306
Rotation angle (degrees) 2.25323646
Shift along axis 0.98431221
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958347 0.02568321 0.01316290 -6.72584482
-0.02532249 0.99931802 -0.02687483 9.72797036
-0.01384416 0.02653032 0.99955214 -3.40883193
Axis 0.67917390 0.34345917 -0.64865908
Axis point 0.00000000 110.27288271 346.59549306
Rotation angle (degrees) 2.25323646
Shift along axis 0.98431221
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958347 0.02568321 0.01316290 -6.72584482
-0.02532249 0.99931802 -0.02687483 9.72797036
-0.01384416 0.02653032 0.99955214 -3.40883193
Axis 0.67917390 0.34345917 -0.64865908
Axis point 0.00000000 110.27288271 346.59549306
Rotation angle (degrees) 2.25323646
Shift along axis 0.98431221
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958347 0.02568321 0.01316290 -6.72584482
-0.02532249 0.99931802 -0.02687483 9.72797036
-0.01384416 0.02653032 0.99955214 -3.40883193
Axis 0.67917390 0.34345917 -0.64865908
Axis point 0.00000000 110.27288271 346.59549306
Rotation angle (degrees) 2.25323646
Shift along axis 0.98431221
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958347 0.02568321 0.01316290 -6.72584482
-0.02532249 0.99931802 -0.02687483 9.72797036
-0.01384416 0.02653032 0.99955214 -3.40883193
Axis 0.67917390 0.34345917 -0.64865908
Axis point 0.00000000 110.27288271 346.59549306
Rotation angle (degrees) 2.25323646
Shift along axis 0.98431221
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958347 0.02568321 0.01316290 -6.72584482
-0.02532249 0.99931802 -0.02687483 9.72797036
-0.01384416 0.02653032 0.99955214 -3.40883193
Axis 0.67917390 0.34345917 -0.64865908
Axis point 0.00000000 110.27288271 346.59549306
Rotation angle (degrees) 2.25323646
Shift along axis 0.98431221
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958347 0.02568321 0.01316290 -6.72584482
-0.02532249 0.99931802 -0.02687483 9.72797036
-0.01384416 0.02653032 0.99955214 -3.40883193
Axis 0.67917390 0.34345917 -0.64865908
Axis point 0.00000000 110.27288271 346.59549306
Rotation angle (degrees) 2.25323646
Shift along axis 0.98431221
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958347 0.02568321 0.01316290 -6.72584482
-0.02532249 0.99931802 -0.02687483 9.72797036
-0.01384416 0.02653032 0.99955214 -3.40883193
Axis 0.67917390 0.34345917 -0.64865908
Axis point 0.00000000 110.27288271 346.59549306
Rotation angle (degrees) 2.25323646
Shift along axis 0.98431221
> fitmap sel inMap #1
Fit molecules krog.pdb (#10.1), krog.pdb (#10.2), krog.pdb (#10.3), krog.pdb
(#10.4), krog.pdb (#10.5), krog.pdb (#10.6), krog.pdb (#10.7), krog.pdb
(#10.8) to map JGMVVLP-h_P78_J310.mrc (#1) using 11792 atoms
average map value = 0.5777, steps = 40
shifted from previous position = 0.00528
rotated from previous position = 0.00113 degrees
atoms outside contour = 5705, contour level = 0.55699
Position of krog.pdb (#10.1) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958336 0.02568250 0.01317273 -6.73204031
-0.02532128 0.99931759 -0.02689196 9.72830651
-0.01385440 0.02654721 0.99955155 -3.41006279
Axis 0.67935810 0.34358872 -0.64839753
Axis point 0.00000000 110.36547467 346.43156543
Rotation angle (degrees) 2.25406087
Shift along axis 0.98014656
Position of krog.pdb (#10.2) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958336 0.02568250 0.01317273 -6.73204031
-0.02532128 0.99931759 -0.02689196 9.72830651
-0.01385440 0.02654721 0.99955155 -3.41006279
Axis 0.67935810 0.34358872 -0.64839753
Axis point 0.00000000 110.36547467 346.43156543
Rotation angle (degrees) 2.25406087
Shift along axis 0.98014656
Position of krog.pdb (#10.3) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958336 0.02568250 0.01317273 -6.73204031
-0.02532128 0.99931759 -0.02689196 9.72830651
-0.01385440 0.02654721 0.99955155 -3.41006279
Axis 0.67935810 0.34358872 -0.64839753
Axis point 0.00000000 110.36547467 346.43156543
Rotation angle (degrees) 2.25406087
Shift along axis 0.98014656
Position of krog.pdb (#10.4) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958336 0.02568250 0.01317273 -6.73204031
-0.02532128 0.99931759 -0.02689196 9.72830651
-0.01385440 0.02654721 0.99955155 -3.41006279
Axis 0.67935810 0.34358872 -0.64839753
Axis point 0.00000000 110.36547467 346.43156543
Rotation angle (degrees) 2.25406087
Shift along axis 0.98014656
Position of krog.pdb (#10.5) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958336 0.02568250 0.01317273 -6.73204031
-0.02532128 0.99931759 -0.02689196 9.72830651
-0.01385440 0.02654721 0.99955155 -3.41006279
Axis 0.67935810 0.34358872 -0.64839753
Axis point 0.00000000 110.36547467 346.43156543
Rotation angle (degrees) 2.25406087
Shift along axis 0.98014656
Position of krog.pdb (#10.6) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958336 0.02568250 0.01317273 -6.73204031
-0.02532128 0.99931759 -0.02689196 9.72830651
-0.01385440 0.02654721 0.99955155 -3.41006279
Axis 0.67935810 0.34358872 -0.64839753
Axis point 0.00000000 110.36547467 346.43156543
Rotation angle (degrees) 2.25406087
Shift along axis 0.98014656
Position of krog.pdb (#10.7) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958336 0.02568250 0.01317273 -6.73204031
-0.02532128 0.99931759 -0.02689196 9.72830651
-0.01385440 0.02654721 0.99955155 -3.41006279
Axis 0.67935810 0.34358872 -0.64839753
Axis point 0.00000000 110.36547467 346.43156543
Rotation angle (degrees) 2.25406087
Shift along axis 0.98014656
Position of krog.pdb (#10.8) relative to JGMVVLP-h_P78_J310.mrc (#1)
coordinates:
Matrix rotation and translation
0.99958336 0.02568250 0.01317273 -6.73204031
-0.02532128 0.99931759 -0.02689196 9.72830651
-0.01385440 0.02654721 0.99955155 -3.41006279
Axis 0.67935810 0.34358872 -0.64839753
Axis point 0.00000000 110.36547467 346.43156543
Rotation angle (degrees) 2.25406087
Shift along axis 0.98014656
===== Log before crash end =====
Log:
Startup Messages
---
warning | Replacing fetcher for 'pdb_nmr' and format NMRSTAR from NMRSTAR
bundle with that from NMRSTAR bundle
UCSF ChimeraX version: 1.7 (2023-12-19)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 83
OpenGL renderer: Apple M1
OpenGL vendor: Apple
Python: 3.11.2
Locale: UTF-8
Qt version: PyQt6 6.3.1, Qt 6.3.1
Qt runtime version: 6.3.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Air
Model Identifier: MacBookAir10,1
Model Number: Z128000N6ZE/A
Chip: Unknown
Total Number of Cores: 8 (4 performance and 4 efficiency)
Memory: 16 GB
System Firmware Version: 8419.80.7
OS Loader Version: 8419.80.7
Software:
System Software Overview:
System Version: macOS 13.2 (22D49)
Kernel Version: Darwin 22.3.0
Time since boot: 2 hours
Graphics/Displays:
Apple M1:
Chipset Model: Apple M1
Type: GPU
Bus: Built-In
Total Number of Cores: 8
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-In Retina LCD
Resolution: 2560 x 1600 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
ASUS VG27V:
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080 @ 165.00Hz
Mirror: Off
Online: Yes
Installed Packages:
alabaster: 0.7.13
appdirs: 1.4.4
appnope: 0.1.3
asttokens: 2.4.1
Babel: 2.14.0
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
blosc2: 2.0.0
build: 0.10.0
certifi: 2022.12.7
cftime: 1.6.3
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.13
ChimeraX-AddH: 2.2.5
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.4.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.1
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.49.1
ChimeraX-AtomicLibrary: 12.1.3
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.3.2
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.2
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.10.5
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.2
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.3.2
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.3.2
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.5
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.7
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2
ChimeraX-DistMonitor: 1.4
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: 1.1.1
ChimeraX-Hbonds: 2.4
ChimeraX-Help: 1.2.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-Label: 1.1.8
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.1.4
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: 2.1.2
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.12.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.13
ChimeraX-ModelPanel: 1.4
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-Neuron: 1.0
ChimeraX-Nifti: 1.1
ChimeraX-NRRD: 1.1
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.1
ChimeraX-PDB: 2.7.3
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.3
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.2
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-SelInspector: 1.0
ChimeraX-SeqView: 2.11
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.2
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.12.3
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.1.2
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.2.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.33.2
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.3.2
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: 1.1.3
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.0
contourpy: 1.2.0
cxservices: 1.2.2
cycler: 0.12.1
Cython: 0.29.33
debugpy: 1.8.0
decorator: 5.1.1
docutils: 0.19
executing: 2.0.1
filelock: 3.9.0
fonttools: 4.47.0
funcparserlib: 2.0.0a0
glfw: 2.6.4
grako: 3.16.5
h5py: 3.10.0
html2text: 2020.1.16
idna: 3.6
ihm: 0.38
imagecodecs: 2023.9.18
imagesize: 1.4.1
ipykernel: 6.23.2
ipython: 8.14.0
ipython-genutils: 0.2.0
ipywidgets: 8.1.1
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.2.0
jupyter-core: 5.5.1
jupyterlab-widgets: 3.0.9
kiwisolver: 1.4.5
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.3
matplotlib: 3.7.2
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.5.8
netCDF4: 1.6.2
networkx: 3.1
nibabel: 5.0.1
nptyping: 2.5.0
numexpr: 2.8.8
numpy: 1.25.1
openvr: 1.23.701
packaging: 21.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.9.0
pickleshare: 0.7.5
Pillow: 10.0.1
pip: 23.0
pkginfo: 1.9.6
platformdirs: 4.1.0
prompt-toolkit: 3.0.43
psutil: 5.9.5
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.16.1
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.2801
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.3.1
PyQt6-Qt6: 6.3.2
PyQt6-sip: 13.4.0
PyQt6-WebEngine-commercial: 6.3.1
PyQt6-WebEngine-Qt6: 6.3.2
python-dateutil: 2.8.2
pytz: 2023.3.post1
pyzmq: 25.1.2
qtconsole: 5.4.3
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.11.1
setuptools: 67.4.0
setuptools-scm: 7.0.5
sfftk-rw: 0.7.3
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.7
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.5
sphinxcontrib-htmlhelp: 2.0.4
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.6
sphinxcontrib-serializinghtml: 1.1.9
stack-data: 0.6.3
superqt: 0.5.0
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2023.7.18
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.4
traitlets: 5.9.0
typing-extensions: 4.9.0
tzdata: 2023.3
urllib3: 2.1.0
wcwidth: 0.2.12
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.9
Change History (2)
comment:1 by , 16 months ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Core |
| Description: | modified (diff) |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash in garbage collection |
comment:2 by , 16 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | accepted → closed |
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