![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 16 months ago
Closed 16 months ago
#15442 closed defect (duplicate)
Crash in garbage collection
| Reported by: | Owned by: | pett | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
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 0x0000000319562000 (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 0x00000002046232c0 (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/geometry/matrix.py", line 179 in multiply_matrices
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/geometry/matrix.py", line 182 in multiply_matrices
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/geometry/matrix.py", line 512 in rotation_transform
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/geometry/place.py", line 447 in rotation
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/map_fit/fitmap.py", line 492 in rotation_step
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/map_fit/fitmap.py", line 239 in step_to_maximum
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/map_fit/fitmap.py", line 173 in locate_maximum
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/map_fit/fitmap.py", line 106 in motion_to_maximum
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/map_fit/fitmap.py", line 70 in move_atoms_to_maximum
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/map_fit/fitgui.py", line 453 in _fit_atoms_in_map
File "/Applications/ChimeraX-1.7.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/map_fit/fitgui.py", line 398 in _fit
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, chimerax.pdb_lib._load_libs, chimerax.surface._surface, 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.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" : 65000,
"procRole" : "Foreground",
"version" : 2,
"userID" : 501,
"deployVersion" : 210,
"modelCode" : "MacBookAir10,1",
"coalitionID" : 7971,
"osVersion" : {
"train" : "macOS 13.2",
"build" : "22D49",
"releaseType" : "User"
},
"captureTime" : "2024-06-19 20:26:16.8310 +0200",
"incident" : "861AA08D-7FE4-4537-A567-D8CC72EE0CD1",
"pid" : 48270,
"translated" : true,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2024-06-19 18:29:01.3595 +0200",
"procStartAbsTime" : 1393591676636,
"procExitAbsTime" : 1562448832196,
"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":"33F46991-5BB6-5AC1-948C-C6132400890E","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "311D3808-133C-AE77-3A0C-264C8C389551",
"throttleTimeout" : 2147483647,
"wakeTime" : 7600,
"sleepWakeUUID" : "130F2446-B592-4C7E-9FFF-E173BD212A65",
"sip" : "enabled",
"vmRegionInfo" : "0xa9 is not in any region. Bytes before following region: 140722674057047\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n mapped file 7ffc8cffc000-7ffc97ac8000 [170.8M] r-x\/r-x SM=COW ...t_id=f5aee7c9",
"exception" : {"codes":"0x0000000000000001, 0x00000000000000a9","rawCodes":[1,169],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00000000000000a9"},
"vmregioninfo" : "0xa9 is not in any region. Bytes before following region: 140722674057047\n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n UNUSED SPACE AT START\n---> \n mapped file 7ffc8cffc000-7ffc97ac8000 [170.8M] r-x\/r-x SM=COW ...t_id=f5aee7c9",
"extMods" : {"caller":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"system":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"targeted":{"thread_create":0,"thread_set_state":0,"task_for_pid":0},"warnings":0},
"faultingThread" : 0,
"threads" : 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===== 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/TEV-VLP/h/TEVVLP_P122_J66.mrc
Opened TEVVLP_P122_J66.mrc as #1, grid size 350,350,350, pixel 0.95, shown at
level 2.22, step 2, values float32
> open /Users/nezakoritnik/Desktop/TEV-
> VLP/h/Refine1/chains_filament_real_space_refined.pdb
Chain information for chains_filament_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:38-233
1582 atoms, 1618 bonds, 196 residues, 1 model selected
> save /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif selectedOnly true
> relModel #2
Not saving entity_poly_seq for non-authoritative sequences
> close #2
> set bgColor white
> volume #1 step 1
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif-
> coot235-0-coot-2.pdb
Chain information for mono2.cif-coot235-0-coot-2.pdb #2
---
Chain | Description
Aa | No description available
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif-
> coot235-0-coot-2.pdb
Chain information for mono2.cif-coot235-0-coot-2.pdb #3
---
Chain | Description
Aa | No description available
> select add #3
1582 atoms, 1618 bonds, 196 residues, 1 model selected
> ui mousemode right "translate selected models"
> view matrix models #3,1,0,0,24.758,0,1,0,-7.8903,0,0,1,-4.8712
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.74477,-0.6623,-0.081668,164.01,0.66624,0.74493,0.034659,-73.66,0.037883,-0.080223,0.99606,1.2516
> ui mousemode right "translate selected models"
> view matrix models
> #3,0.74477,-0.6623,-0.081668,166.09,0.66624,0.74493,0.034659,-72.695,0.037883,-0.080223,0.99606,-0.18549
> view matrix models
> #3,0.74477,-0.6623,-0.081668,165.79,0.66624,0.74493,0.034659,-73.258,0.037883,-0.080223,0.99606,-0.54307
> ui tool show "Fit in Map"
> fitmap #2 inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#2) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 36
shifted from previous position = 0.0787
rotated from previous position = 0.175 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#2) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99999819 0.00020833 -0.00189216 0.30362555
-0.00021284 0.99999715 -0.00237920 0.47468633
0.00189166 0.00237959 0.99999538 -0.51075015
Axis 0.78085629 -0.62087638 -0.06910847
Axis point -0.00000000 215.66173309 193.42788143
Rotation angle (degrees) 0.17458978
Shift along axis -0.02233645
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 80
shifted from previous position = 3.01
rotated from previous position = 5.2 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73782570 -0.67499128 -0.00001689 155.77400613
0.67498889 0.73782315 -0.00264467 -68.15869103
0.00179759 0.00193990 0.99999650 -5.18831450
Axis 0.00339601 -0.00134407 0.99999333
Axis point 165.64405615 166.46423077 0.00000000
Rotation angle (degrees) 42.45372977
Shift along axis -4.56766027
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0154
rotated from previous position = 0.0158 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73796211 -0.67484214 0.00012889 155.71722049
0.67484023 0.73795954 -0.00252520 -68.16508556
0.00160900 0.00195048 0.99999680 -5.15783716
Axis 0.00331608 -0.00109663 0.99999390
Axis point 165.64843991 166.44810623 0.00000000
Rotation angle (degrees) 42.44213812
Shift along axis -4.56668376
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 44
shifted from previous position = 0.0102
rotated from previous position = 0.00691 degrees
atoms outside contour = 521, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73793915 -0.67486725 0.00013119 155.71833997
0.67486515 0.73793634 -0.00264082 -68.14051956
0.00168539 0.00203730 0.99999650 -5.17245667
Axis 0.00346594 -0.00115148 0.99999333
Axis point 165.61365707 166.45239325 0.00000000
Rotation angle (degrees) 42.44411022
Shift along axis -4.55424922
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 44
shifted from previous position = 0.00388
rotated from previous position = 0.00726 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73798393 -0.67481825 0.00020486 155.69173051
0.67481644 0.73798117 -0.00256187 -68.15051115
0.00157761 0.00202886 0.99999670 -5.15339797
Axis 0.00340144 -0.00101712 0.99999370
Axis point 165.62085165 166.43280982 0.00000000
Rotation angle (degrees) 42.44029788
Shift along axis -4.55447199
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 28
shifted from previous position = 0.0141
rotated from previous position = 0.0167 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73786372 -0.67494973 -0.00001554 155.77112277
0.67494737 0.73786120 -0.00262749 -68.15023163
0.00178489 0.00192824 0.99999655 -5.18099202
Axis 0.00337485 -0.00133374 0.99999342
Axis point 165.63891123 166.48137354 0.00000000
Rotation angle (degrees) 42.45049999
Shift along axis -4.56435892
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 44
shifted from previous position = 0.00942
rotated from previous position = 0.003 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73786556 -0.67494772 0.00002729 155.75624635
0.67494549 0.73786302 -0.00259762 -68.15362664
0.00173312 0.00193511 0.99999663 -5.16786182
Axis 0.00335782 -0.00126367 0.99999356
Axis point 165.63570408 166.46138336 0.00000000
Rotation angle (degrees) 42.45034115
Shift along axis -4.55870346
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.00789
rotated from previous position = 0.00953 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73794464 -0.67486124 0.00012942 155.72134510
0.67485931 0.73794205 -0.00253857 -68.16121413
0.00161768 0.00196067 0.99999677 -5.15858205
Axis 0.00333344 -0.00110263 0.99999384
Axis point 165.64222876 166.44773841 0.00000000
Rotation angle (degrees) 42.44362350
Shift along axis -4.56430561
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 44
shifted from previous position = 0.008
rotated from previous position = 0.0132 degrees
atoms outside contour = 522, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73785551 -0.67495869 -0.00004665 155.78246546
0.67495632 0.73785309 -0.00260459 -68.15622774
0.00179242 0.00189032 0.99999661 -5.18060358
Axis 0.00332975 -0.00136235 0.99999353
Axis point 165.65078635 166.48906049 0.00000000
Rotation angle (degrees) 42.45118949
Shift along axis -4.56900003
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#3) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 48
shifted from previous position = 0.0195
rotated from previous position = 0.00644 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#3) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73778405 -0.67503681 -0.00002561 155.78239633
0.67503441 0.73778153 -0.00263607 -68.15882432
0.00179834 0.00192756 0.99999652 -5.17892175
Axis 0.00338027 -0.00135100 0.99999337
Axis point 165.64037392 166.45649769 0.00000000
Rotation angle (degrees) 42.45726309
Shift along axis -4.56021877
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif-
> coot235-0-coot-2.pdb
Chain information for mono2.cif-coot235-0-coot-2.pdb #4
---
Chain | Description
Aa | No description available
> select add #4
3164 atoms, 3236 bonds, 392 residues, 2 models selected
> select subtract #3
1582 atoms, 1618 bonds, 196 residues, 1 model selected
> view matrix models #4,1,0,0,76.907,0,1,0,-7.3843,0,0,1,-5.3424
> view matrix models #4,1,0,0,81.681,0,1,0,38.97,0,0,1,-3.6787
> view matrix models #4,1,0,0,48.93,0,1,0,21.252,0,0,1,-9.4988
> ui mousemode right "rotate selected models"
> view matrix models
> #4,-0.090707,-0.92964,-0.35714,393.26,0.99294,-0.11197,0.039269,22.763,-0.076495,-0.35105,0.93323,60.629
> ui mousemode right "translate selected models"
> view matrix models
> #4,-0.090707,-0.92964,-0.35714,404.38,0.99294,-0.11197,0.039269,7.9685,-0.076495,-0.35105,0.93323,57.888
> view matrix models
> #4,-0.090707,-0.92964,-0.35714,402.68,0.99294,-0.11197,0.039269,2.9454,-0.076495,-0.35105,0.93323,56.48
> view matrix models
> #4,-0.090707,-0.92964,-0.35714,401.23,0.99294,-0.11197,0.039269,2.3096,-0.076495,-0.35105,0.93323,55.496
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 512
shifted from previous position = 5.69
rotated from previous position = 23.9 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08894662 -0.99603449 0.00194852 316.68881899
0.99603477 0.08894277 -0.00197910 -13.78375435
0.00179794 0.00211683 0.99999614 -9.95647858
Axis 0.00205611 0.00007559 0.99999788
Axis point 165.88899862 166.23342119 0.00000000
Rotation angle (degrees) 84.89721186
Shift along axis -9.30635134
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 48
shifted from previous position = 0.0189
rotated from previous position = 0.0134 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08907332 -0.99602301 0.00202840 316.64290925
0.99602377 0.08906972 -0.00180036 -13.83045246
0.00161253 0.00218069 0.99999632 -9.92272375
Axis 0.00199847 0.00020876 0.99999798
Axis point 165.89154052 166.20745641 0.00000000
Rotation angle (degrees) 84.88991115
Shift along axis -9.29278907
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 60
shifted from previous position = 0.00887
rotated from previous position = 0.00168 degrees
atoms outside contour = 521, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08908749 -0.99602176 0.00201966 316.64743943
0.99602246 0.08908385 -0.00182454 -13.82185414
0.00163736 0.00217417 0.99999630 -9.92968722
Axis 0.00200734 0.00019191 0.99999797
Axis point 165.88934874 166.21666769 0.00000000
Rotation angle (degrees) 84.88909810
Shift along axis -9.29670199
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 28
shifted from previous position = 0.00496
rotated from previous position = 0.0134 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08904429 -0.99602580 0.00192862 316.67264488
0.99602594 0.08904037 -0.00203549 -13.77364452
0.00185568 0.00210220 0.99999607 -9.95287708
Axis 0.00207710 0.00003662 0.99999784
Axis point 165.87642537 166.24657381 0.00000000
Rotation angle (degrees) 84.89159762
Shift along axis -9.29560046
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 28
shifted from previous position = 0.0235
rotated from previous position = 0.0128 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08883197 -0.99604487 0.00186912 316.71739247
0.99604495 0.08882823 -0.00199915 -13.77691790
0.00182521 0.00203932 0.99999626 -9.94926819
Axis 0.00202725 0.00002204 0.99999794
Axis point 165.89879982 166.23204782 0.00000000
Rotation angle (degrees) 84.90380053
Shift along axis -9.30748696
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 40
shifted from previous position = 0.0183
rotated from previous position = 0.0213 degrees
atoms outside contour = 521, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08910205 -0.99602043 0.00203080 316.64364215
0.99602119 0.08909844 -0.00180429 -13.82822332
0.00161617 0.00218348 0.99999631 -9.92910506
Axis 0.00200185 0.00020814 0.99999797
Axis point 165.89093282 166.21400482 0.00000000
Rotation angle (degrees) 84.88825919
Shift along axis -9.29809075
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 28
shifted from previous position = 0.0141
rotated from previous position = 0.0179 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08888622 -0.99604000 0.00188565 316.70886983
0.99604016 0.08888249 -0.00197688 -13.78032251
0.00180145 0.00205390 0.99999627 -9.94885211
Axis 0.00202340 0.00004227 0.99999795
Axis point 165.89668878 166.23523652 0.00000000
Rotation angle (degrees) 84.90067932
Shift along axis -9.30858506
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 44
shifted from previous position = 0.0172
rotated from previous position = 0.0196 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08911565 -0.99601917 0.00205528 316.63363502
0.99602000 0.08911204 -0.00178842 -13.83456081
0.00159815 0.00220648 0.99999629 -9.92576209
Axis 0.00200542 0.00022948 0.99999796
Axis point 165.88940425 166.20785772 0.00000000
Rotation angle (degrees) 84.88747744
Shift along axis -9.29393176
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 40
shifted from previous position = 0.00213
rotated from previous position = 0.015 degrees
atoms outside contour = 521, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08901222 -0.99602859 0.00196945 316.66517207
0.99602886 0.08900826 -0.00201247 -13.77980851
0.00182918 0.00214077 0.99999604 -9.94953743
Axis 0.00208490 0.00007041 0.99999782
Axis point 165.87567891 166.23400860 0.00000000
Rotation angle (degrees) 84.89344445
Shift along axis -9.29027242
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 28
shifted from previous position = 0.0198
rotated from previous position = 0.0124 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08883985 -0.99604422 0.00184304 316.72532016
0.99604418 0.08883608 -0.00203507 -13.76232471
0.00186329 0.00201655 0.99999623 -9.95390536
Axis 0.00203385 -0.00001017 0.99999793
Axis point 165.89504841 166.24492518 0.00000000
Rotation angle (degrees) 84.90334901
Shift along axis -9.30957296
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 44
shifted from previous position = 0.017
rotated from previous position = 0.0184 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08903741 -0.99602631 0.00198228 316.65957682
0.99602693 0.08903384 -0.00182540 -13.81941767
0.00164165 0.00213693 0.99999637 -9.92369476
Axis 0.00198906 0.00017099 0.99999801
Axis point 165.89371398 166.21558995 0.00000000
Rotation angle (degrees) 84.89197473
Shift along axis -9.29618201
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 44
shifted from previous position = 0.00971
rotated from previous position = 0.00812 degrees
atoms outside contour = 521, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08899287 -0.99603027 0.00199061 316.66872993
0.99603068 0.08898899 -0.00195949 -13.79538060
0.00177457 0.00215709 0.99999610 -9.95264240
Axis 0.00206649 0.00010845 0.99999786
Axis point 165.88554183 166.22490384 0.00000000
Rotation angle (degrees) 84.89455344
Shift along axis -9.29972456
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 40
shifted from previous position = 0.00876
rotated from previous position = 0.00598 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08901826 -0.99602801 0.00198773 316.66024572
0.99602859 0.08901461 -0.00185833 -13.81519529
0.00167401 0.00214526 0.99999630 -9.92944203
Axis 0.00200977 0.00015749 0.99999797
Axis point 165.89177131 166.21475636 0.00000000
Rotation angle (degrees) 84.89308061
Shift along axis -9.29518251
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 44
shifted from previous position = 0.00338
rotated from previous position = 0.00693 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08909858 -0.99602069 0.00205769 316.63382016
0.99602151 0.08909493 -0.00180174 -13.83260847
0.00161124 0.00221004 0.99999626 -9.92658436
Axis 0.00201390 0.00022411 0.99999795
Axis point 165.88836957 166.20596793 0.00000000
Rotation angle (degrees) 84.88846118
Shift along axis -9.29199568
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 40
shifted from previous position = 0.00281
rotated from previous position = 0.0042 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08904472 -0.99602559 0.00201529 316.65109143
0.99602628 0.08904109 -0.00182726 -13.82332127
0.00164056 0.00216999 0.99999630 -9.92758085
Axis 0.00200660 0.00018811 0.99999797
Axis point 165.89166486 166.21044339 0.00000000
Rotation angle (degrees) 84.89155784
Shift along axis -9.29477005
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#4) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 40
shifted from previous position = 0.0113
rotated from previous position = 0.00336 degrees
atoms outside contour = 521, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#4) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08901747 -0.99602810 0.00198048 316.66876776
0.99602865 0.08901381 -0.00186570 -13.80724307
0.00168200 0.00213870 0.99999630 -9.93624721
Axis 0.00201018 0.00014983 0.99999797
Axis point 165.89172615 166.22322365 0.00000000
Rotation angle (degrees) 84.89312655
Shift along axis -9.30173481
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif-
> coot235-0-coot-2.pdb
Chain information for mono2.cif-coot235-0-coot-2.pdb #5
---
Chain | Description
Aa | No description available
> select add #5
3164 atoms, 3236 bonds, 392 residues, 2 models selected
> select subtract #4
1582 atoms, 1618 bonds, 196 residues, 1 model selected
> view matrix models #5,1,0,0,44.663,0,1,0,51.029,0,0,1,-10.026
> ui mousemode right "rotate selected models"
> view matrix models
> #5,-0.7695,-0.63083,-0.099613,394.47,0.62384,-0.77585,0.094226,181.59,-0.13673,0.010364,0.99055,9.4928
> view matrix models
> #5,-0.55439,-0.78813,-0.26739,417.63,0.81593,-0.57802,0.012014,144.35,-0.16403,-0.21152,0.96351,47.961
> ui mousemode right "translate selected models"
> view matrix models
> #5,-0.55439,-0.78813,-0.26739,434.22,0.81593,-0.57802,0.012014,123.5,-0.16403,-0.21152,0.96351,45.389
> view matrix models
> #5,-0.55439,-0.78813,-0.26739,437.14,0.81593,-0.57802,0.012014,122.22,-0.16403,-0.21152,0.96351,43.718
> view matrix models
> #5,-0.55439,-0.78813,-0.26739,437.33,0.81593,-0.57802,0.012014,125.99,-0.16403,-0.21152,0.96351,41.934
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.165, steps = 116
shifted from previous position = 3.11
rotated from previous position = 15.8 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60688205 -0.79478815 0.00244263 398.83977815
0.79479056 -0.60688382 0.00002138 134.97091218
0.00146540 0.00195435 0.99999702 -14.62846621
Axis 0.00121603 0.00061477 0.99999907
Axis point 166.04725578 166.13045948 0.00000000
Rotation angle (degrees) 127.36456601
Shift along axis -14.06047573
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0164
rotated from previous position = 0.0147 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60667816 -0.79494373 0.00246369 398.81552004
0.79494617 -0.60667996 0.00001952 134.92393957
0.00147916 0.00197034 0.99999696 -14.62056711
Axis 0.00122702 0.00061924 0.99999906
Axis point 166.03603684 166.13286800 0.00000000
Rotation angle (degrees) 127.34987249
Shift along axis -14.04764948
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0117
rotated from previous position = 0.0141 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60679192 -0.79485675 0.00251246 398.81776458
0.79485898 -0.60679417 -0.00017354 134.99112629
0.00166248 0.00189175 0.99999683 -14.64611603
Axis 0.00129915 0.00053467 0.99999901
Axis point 166.02740078 166.14885526 0.00000000
Rotation angle (degrees) 127.35809310
Shift along axis -14.05580000
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 48
shifted from previous position = 0.0115
rotated from previous position = 0.021 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60672250 -0.79491068 0.00219217 398.87903938
0.79491257 -0.60672400 -0.00002039 134.94690725
0.00134625 0.00173021 0.99999760 -14.58863080
Axis 0.00110113 0.00053208 0.99999925
Axis point 166.06379999 166.15212065 0.00000000
Rotation angle (degrees) 127.35303450
Shift along axis -14.07759960
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.00694
rotated from previous position = 0.0113 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60676759 -0.79487575 0.00237305 398.84619850
0.79487803 -0.60676924 0.00003253 134.94570723
0.00141404 0.00190602 0.99999718 -14.61532851
Axis 0.00117848 0.00060325 0.99999912
Axis point 166.05040345 166.13711713 0.00000000
Rotation angle (degrees) 127.35630494
Shift along axis -14.06387708
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 44
shifted from previous position = 0.0151
rotated from previous position = 0.0106 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60663752 -0.79497477 0.00245556 398.81491509
0.79497725 -0.60663924 0.00005753 134.90990675
0.00144390 0.00198701 0.99999698 -14.61923164
Axis 0.00121355 0.00063628 0.99999906
Axis point 166.03689820 166.13213230 0.00000000
Rotation angle (degrees) 127.34693974
Shift along axis -14.04939721
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 28
shifted from previous position = 0.00812
rotated from previous position = 0.022 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60675210 -0.79488624 0.00278211 398.75950753
0.79488918 -0.60675463 -0.00008084 134.95747314
0.00175232 0.00216242 0.99999613 -14.68139013
Axis 0.00141106 0.00064776 0.99999879
Axis point 166.00496591 166.12500074 0.00000000
Rotation angle (degrees) 127.35525820
Shift along axis -14.03128072
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 44
shifted from previous position = 0.0197
rotated from previous position = 0.0188 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60682228 -0.79483363 0.00249380 398.82494856
0.79483576 -0.60682457 -0.00021080 135.00453550
0.00168085 0.00185425 0.99999687 -14.64669479
Axis 0.00129904 0.00051140 0.99999903
Axis point 166.02936117 166.15242564 0.00000000
Rotation angle (degrees) 127.36028153
Shift along axis -14.05955013
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 48
shifted from previous position = 0.0203
rotated from previous position = 0.0183 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60666970 -0.79495017 0.00246779 398.81252293
0.79495266 -0.60667147 0.00004159 134.91337459
0.00146408 0.00198701 0.99999695 -14.61679523
Axis 0.00122361 0.00063131 0.99999905
Axis point 166.03663584 166.12824106 0.00000000
Rotation angle (degrees) 127.34926187
Shift along axis -14.04361955
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 60
shifted from previous position = 0.00793
rotated from previous position = 0.0116 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60680718 -0.79484500 0.00254286 398.80956072
0.79484752 -0.60680920 -0.00002922 134.96244858
0.00156625 0.00200346 0.99999677 -14.63983489
Axis 0.00127866 0.00061434 0.99999899
Axis point 166.03076380 166.13062640 0.00000000
Rotation angle (degrees) 127.35918732
Shift along axis -14.04696793
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0117
rotated from previous position = 0.01 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60683565 -0.79482346 0.00248149 398.82910078
0.79482561 -0.60683788 -0.00018904 135.00052380
0.00165612 0.00185764 0.99999690 -14.64308010
Axis 0.00128750 0.00051922 0.99999904
Axis point 166.03301986 166.14938206 0.00000000
Rotation angle (degrees) 127.36124169
Shift along axis -14.05947797
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0132
rotated from previous position = 0.0161 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60668147 -0.79494125 0.00245114 398.81858392
0.79494365 -0.60668327 0.00001039 134.92813869
0.00147880 0.00195482 0.99999699 -14.62037570
Axis 0.00122300 0.00061157 0.99999907
Axis point 166.03670091 166.13514147 0.00000000
Rotation angle (degrees) 127.35010964
Shift along axis -14.05008902
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#5) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0127
rotated from previous position = 0.0148 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#5) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60681172 -0.79484173 0.00248124 398.82716581
0.79484388 -0.60681395 -0.00018631 134.99651909
0.00165373 0.00185915 0.99999690 -14.64308529
Axis 0.00128670 0.00052055 0.99999904
Axis point 166.03176781 166.15064400 0.00000000
Rotation angle (degrees) 127.35951699
Shift along axis -14.05962792
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif-
> coot235-0-coot-2.pdb
Chain information for mono2.cif-coot235-0-coot-2.pdb #6
---
Chain | Description
Aa | No description available
> select add #6
3164 atoms, 3236 bonds, 392 residues, 2 models selected
> select subtract #5
1582 atoms, 1618 bonds, 196 residues, 1 model selected
> view matrix models #6,1,0,0,-13.202,0,1,0,27.997,0,0,1,6.8621
> ui mousemode right "rotate selected models"
> view matrix models
> #6,0.81873,0.57062,0.063888,-75.955,-0.57078,0.82092,-0.017514,134.78,-0.062441,-0.022126,0.9978,18.934
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 0.9476, steps = 76
shifted from previous position = 2.49
rotated from previous position = 3.38 degrees
atoms outside contour = 1267, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.78996618 0.61140333 0.04625362 -72.57975533
-0.60969406 0.79127336 -0.04647175 148.41280219
-0.06501224 0.00851055 0.99784817 17.02677695
Axis 0.04479617 0.09065254 -0.99487457
Axis point 182.49053728 180.90702284 0.00000000
Rotation angle (degrees) 37.85709528
Shift along axis -6.73680500
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 0.9477, steps = 40
shifted from previous position = 0.0172
rotated from previous position = 0.028 degrees
atoms outside contour = 1267, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.79023192 0.61106576 0.04617526 -72.57302605
-0.60937219 0.79153531 -0.04623182 148.28579059
-0.06480003 0.00839594 0.99786295 16.99703514
Axis 0.04453265 0.09046726 -0.99490327
Axis point 182.45273351 180.90721278 0.00000000
Rotation angle (degrees) 37.83176526
Shift along axis -6.72726518
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 0.9475, steps = 48
shifted from previous position = 0.0183
rotated from previous position = 0.0153 degrees
atoms outside contour = 1266, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.79009219 0.61124065 0.04625141 -72.57577304
-0.60953813 0.79139979 -0.04636411 148.35571705
-0.06494299 0.00843992 0.99785328 17.02548875
Axis 0.04466300 0.09061878 -0.99488364
Axis point 182.47994964 180.90892371 0.00000000
Rotation angle (degrees) 37.84507077
Shift along axis -6.73601737
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 0.9476, steps = 28
shifted from previous position = 0.0157
rotated from previous position = 0.0242 degrees
atoms outside contour = 1267, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.79031520 0.61095884 0.04616468 -72.56781956
-0.60927087 0.79161841 -0.04614422 148.24718158
-0.06473703 0.00834168 0.99786749 16.99579687
Axis 0.04442498 0.09042350 -0.99491206
Axis point 182.44512582 180.90399119 0.00000000
Rotation angle (degrees) 37.82378076
Shift along axis -6.72811722
> ui mousemode right "translate selected models"
> view matrix models
> #6,0.79032,0.61096,0.046165,-76.471,-0.60927,0.79162,-0.046144,150.07,-0.064737,0.0083417,0.99787,15.038
> view matrix models
> #6,0.79032,0.61096,0.046165,-76.066,-0.60927,0.79162,-0.046144,149.31,-0.064737,0.0083417,0.99787,14.362
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 84
shifted from previous position = 1.92
rotated from previous position = 6.15 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73778595 0.67503015 -0.00248694 -68.18250666
-0.67503244 0.73778804 -0.00011165 155.85756245
0.00175947 0.00176114 0.99999690 4.32975416
Axis 0.00138718 -0.00314533 -0.99999409
Axis point 166.50996315 165.67695640 0.00000000
Rotation angle (degrees) 42.45688995
Shift along axis -4.91453293
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 60
shifted from previous position = 0.0113
rotated from previous position = 0.0101 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73772715 0.67509464 -0.00242392 -68.18736987
-0.67509705 0.73772888 -0.00025075 155.90355843
0.00161892 0.00182136 0.99999703 4.35097626
Axis 0.00153467 -0.00299426 -0.99999434
Axis point 166.54200740 165.69419373 0.00000000
Rotation angle (degrees) 42.46189055
Shift along axis -4.92241176
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.00505
rotated from previous position = 0.0103 degrees
atoms outside contour = 521, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73770681 0.67511631 -0.00257603 -68.15576341
-0.67511884 0.73770897 -0.00015988 155.89185187
0.00179243 0.00185707 0.99999667 4.32425650
Axis 0.00149376 -0.00323531 -0.99999365
Axis point 166.53227430 165.64357734 0.00000000
Rotation angle (degrees) 42.46361405
Shift along axis -4.93039594
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0192
rotated from previous position = 0.00763 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73777725 0.67503963 -0.00249412 -68.18561786
-0.67504204 0.73777924 -0.00017357 155.87879167
0.00172295 0.00181169 0.99999687 4.32889477
Axis 0.00147046 -0.00312354 -0.99999404
Axis point 166.53219624 165.68941104 0.00000000
Rotation angle (degrees) 42.45763389
Shift along axis -4.91602762
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0144
rotated from previous position = 0.00887 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73770927 0.67511406 -0.00245954 -68.18149886
-0.67511659 0.73771099 -0.00028554 155.91857022
0.00162166 0.00187112 0.99999693 4.34600749
Axis 0.00159725 -0.00302258 -0.99999416
Axis point 166.55634212 165.69024845 0.00000000
Rotation angle (degrees) 42.46341278
Shift along axis -4.92616129
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 44
shifted from previous position = 0.0104
rotated from previous position = 0.00628 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73773950 0.67508079 -0.00252053 -68.17768211
-0.67508330 0.73774148 -0.00020640 155.89518115
0.00172017 0.00185384 0.99999680 4.32642796
Axis 0.00152591 -0.00314086 -0.99999390
Axis point 166.54064021 165.67973388 0.00000000
Rotation angle (degrees) 42.46084168
Shift along axis -4.92007862
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0112
rotated from previous position = 0.00838 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73769331 0.67513157 -0.00243882 -68.18478449
-0.67513409 0.73769497 -0.00030633 155.92731292
0.00159229 0.00187251 0.99999698 4.35080027
Axis 0.00161362 -0.00298540 -0.99999424
Axis point 166.55917848 165.69573632 0.00000000
Rotation angle (degrees) 42.46476802
Shift along axis -4.92630592
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 44
shifted from previous position = 0.0114
rotated from previous position = 0.00786 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73773436 0.67508642 -0.00251740 -68.17826088
-0.67508894 0.73773632 -0.00021197 155.89757036
0.00171408 0.00185585 0.99999681 4.32689577
Axis 0.00153151 -0.00313400 -0.99999392
Axis point 166.54121348 165.68066010 0.00000000
Rotation angle (degrees) 42.46127865
Shift along axis -4.91986842
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0115
rotated from previous position = 0.00529 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73774100 0.67507890 -0.00258696 -68.15737329
-0.67508144 0.73774319 -0.00015201 155.88414431
0.00180590 0.00185855 0.99999664 4.32117148
Axis 0.00148912 -0.00325356 -0.99999360
Axis point 166.53648474 165.64837642 0.00000000
Rotation angle (degrees) 42.46071212
Shift along axis -4.92981694
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.00206
rotated from previous position = 0.0135 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73768384 0.67514195 -0.00242985 -68.18588629
-0.67514446 0.73768548 -0.00030521 155.92716849
0.00158641 0.00186565 0.99999700 4.35103831
Axis 0.00160770 -0.00297436 -0.99999428
Axis point 166.55432947 165.69532078 0.00000000
Rotation angle (degrees) 42.46557162
Shift along axis -4.92441911
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.0112
rotated from previous position = 0.00452 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73772105 0.67510148 -0.00237350 -68.20416418
-0.67510388 0.73772262 -0.00030129 155.91541005
0.00154758 0.00182462 0.99999714 4.35411924
Axis 0.00157450 -0.00290405 -0.99999454
Axis point 166.54681561 165.72049192 0.00000000
Rotation angle (degrees) 42.46241068
Shift along axis -4.91426827
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 28
shifted from previous position = 0.0127
rotated from previous position = 0.00604 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73766341 0.67516430 -0.00242171 -68.18632775
-0.67516685 0.73766497 -0.00033992 155.93935157
0.00155690 0.00188580 0.99999701 4.35391230
Axis 0.00164827 -0.00294638 -0.99999430
Axis point 166.56103984 165.69783740 0.00000000
Rotation angle (degrees) 42.46730804
Shift along axis -4.92573357
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 28
shifted from previous position = 0.00605
rotated from previous position = 0.0258 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73764055 0.67518758 -0.00285620 -68.10365037
-0.67519079 0.73764310 -0.00022708 155.92675278
0.00195353 0.00209598 0.99999590 4.27348537
Axis 0.00172029 -0.00356173 -0.99999218
Axis point 166.57259627 165.57922673 0.00000000
Rotation angle (degrees) 42.46925361
Shift along axis -4.94597983
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 40
shifted from previous position = 0.00853
rotated from previous position = 0.0232 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73769568 0.67512888 -0.00246519 -68.18004321
-0.67513143 0.73769741 -0.00029174 155.92070704
0.00162160 0.00187954 0.99999692 4.34340309
Axis 0.00160804 -0.00302665 -0.99999413
Axis point 166.55384301 165.68675901 0.00000000
Rotation angle (degrees) 42.46456630
Shift along axis -4.92493083
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#6) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.166, steps = 28
shifted from previous position = 0.00339
rotated from previous position = 0.0112 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#6) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.73778663 0.67502943 -0.00248083 -68.17732032
-0.67503178 0.73778864 -0.00015162 155.87163823
0.00172799 0.00178650 0.99999691 4.34163830
Axis 0.00143557 -0.00311748 -0.99999411
Axis point 166.53119797 165.67715552 0.00000000
Rotation angle (degrees) 42.45683568
Shift along axis -4.92541332
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif-
> coot235-0-coot-2.pdb
Chain information for mono2.cif-coot235-0-coot-2.pdb #7
---
Chain | Description
Aa | No description available
> select add #7
3164 atoms, 3236 bonds, 392 residues, 2 models selected
> select subtract #6
1582 atoms, 1618 bonds, 196 residues, 1 model selected
> view matrix models #7,1,0,0,-12.064,0,1,0,54.396,0,0,1,15.448
> ui mousemode right "rotate selected models"
> view matrix models
> #7,0.34669,0.88452,0.31213,-98.411,-0.89031,0.41505,-0.1873,292.32,-0.29522,-0.21296,0.93139,98.115
> view matrix models
> #7,0.34989,0.87777,0.32725,-100.87,-0.86207,0.43841,-0.25424,298.16,-0.36663,-0.19316,0.91009,109.55
> view matrix models
> #7,0.27019,0.94289,0.19482,-72.904,-0.89346,0.32095,-0.31421,329.68,-0.35879,-0.089171,0.92915,90.984
> view matrix models
> #7,0.48666,0.78541,0.38247,-118.32,-0.81719,0.56406,-0.1185,249.09,-0.30881,-0.25488,0.91634,108.47
> view matrix models
> #7,0.53039,0.77432,0.34512,-115.76,-0.79625,0.59475,-0.1107,240.6,-0.29098,-0.21609,0.93201,97.821
> ui mousemode right "translate selected models"
> view matrix models
> #7,0.53039,0.77432,0.34512,-116.03,-0.79625,0.59475,-0.1107,245.4,-0.29098,-0.21609,0.93201,92.436
> ui mousemode right "rotate selected models"
> view matrix models
> #7,-0.01793,0.99413,-0.10669,18.274,-0.99801,-0.024253,-0.058256,345.63,-0.060502,0.10544,0.99258,5.9361
> view matrix models
> #7,-0.12295,0.99071,-0.058133,24.033,-0.98889,-0.12723,-0.076833,361.6,-0.083516,0.04804,0.99535,16.234
> ui mousemode right "translate selected models"
> view matrix models
> #7,-0.12295,0.99071,-0.058133,22.349,-0.98889,-0.12723,-0.076833,357.58,-0.083516,0.04804,0.99535,16.645
> view matrix models
> #7,-0.12295,0.99071,-0.058133,22.943,-0.98889,-0.12723,-0.076833,356.35,-0.083516,0.04804,0.99535,16.618
> ui mousemode right "rotate selected models"
> view matrix models
> #7,-0.12751,0.98926,-0.071416,26.327,-0.99013,-0.13118,-0.049335,351.75,-0.058173,0.064421,0.99623,10.739
> ui mousemode right "translate selected models"
> view matrix models
> #7,-0.12751,0.98926,-0.071416,26.596,-0.99013,-0.13118,-0.049335,351.19,-0.058173,0.064421,0.99623,10.744
> view matrix models
> #7,-0.12751,0.98926,-0.071416,28.766,-0.99013,-0.13118,-0.049335,353.08,-0.058173,0.064421,0.99623,10.524
> ui mousemode right "rotate selected models"
> view matrix models
> #7,0.29667,0.95456,-0.028401,-34.09,-0.93128,0.2826,-0.2299,324.7,-0.21143,0.094655,0.9728,32.402
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 144
shifted from previous position = 0.857
rotated from previous position = 18 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08850868 0.99607290 -0.00223344 -13.65133244
-0.99607400 0.08851210 0.00148243 316.87229899
0.00167429 0.00209346 0.99999641 9.04246070
Axis 0.00030672 -0.00196156 -0.99999803
Axis point 166.30430758 165.88474532 0.00000000
Rotation angle (degrees) 84.92218649
Shift along axis -9.66819482
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 44
shifted from previous position = 0.0117
rotated from previous position = 0.0172 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08870158 0.99605572 -0.00224578 -13.66964374
-0.99605643 0.08870550 0.00171044 316.81104456
0.00190291 0.00208520 0.99999602 9.01658524
Axis 0.00018812 -0.00208255 -0.99999781
Axis point 166.29419551 165.86568282 0.00000000
Rotation angle (degrees) 84.91108776
Shift along axis -9.67891264
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 28
shifted from previous position = 0.0134
rotated from previous position = 0.0165 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08850578 0.99607291 -0.00234234 -13.61971036
-0.99607417 0.08850948 0.00152459 316.86565422
0.00172592 0.00219820 0.99999610 9.03686947
Axis 0.00033814 -0.00204214 -0.99999786
Axis point 166.31570100 165.86359570 0.00000000
Rotation angle (degrees) 84.92235439
Shift along axis -9.68853980
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.00464
rotated from previous position = 0.0113 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08862542 0.99606247 -0.00225689 -13.65414525
-0.99606331 0.08862925 0.00165653 316.82491596
0.00185003 0.00210120 0.99999608 9.02776044
Axis 0.00022321 -0.00206158 -0.99999785
Axis point 166.29649270 165.86347229 0.00000000
Rotation angle (degrees) 84.91546910
Shift along axis -9.68394716
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 44
shifted from previous position = 0.0147
rotated from previous position = 0.00675 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08871226 0.99605491 -0.00217800 -13.68795895
-0.99605558 0.08871596 0.00166396 316.81331907
0.00185062 0.00202179 0.99999624 9.02578986
Axis 0.00017962 -0.00202228 -0.99999794
Axis point 166.28841747 165.87721747 0.00000000
Rotation angle (degrees) 84.91047271
Shift along axis -9.66891557
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 48
shifted from previous position = 0.0182
rotated from previous position = 0.00699 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08863949 0.99606118 -0.00227522 -13.65078014
-0.99606206 0.08864335 0.00165374 316.83261878
0.00184891 0.00211967 0.99999605 9.02702604
Axis 0.00023389 -0.00207021 -0.99999783
Axis point 166.30484225 165.86549568 0.00000000
Rotation angle (degrees) 84.91466008
Shift along axis -9.68611070
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.01
rotated from previous position = 0.00242 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08860698 0.99606412 -0.00225300 -13.65290638
-0.99606493 0.08861082 0.00166888 316.82508263
0.00186195 0.00209626 0.99999607 9.02591639
Axis 0.00021453 -0.00206560 -0.99999784
Axis point 166.29392646 165.86276975 0.00000000
Rotation angle (degrees) 84.91652991
Shift along axis -9.68326103
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 44
shifted from previous position = 0.0149
rotated from previous position = 0.00746 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08872181 0.99605398 -0.00221584 -13.68280400
-0.99605462 0.08872569 0.00171647 316.80595254
0.00190629 0.00205481 0.99999607 9.01359707
Axis 0.00016984 -0.00206923 -0.99999784
Axis point 166.28835621 165.87064186 0.00000000
Rotation angle (degrees) 84.90992322
Shift along axis -9.67144543
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.00719
rotated from previous position = 0.00577 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08862198 0.99606286 -0.00221815 -13.66737628
-0.99606352 0.08862584 0.00170789 316.81585159
0.00189775 0.00205807 0.99999608 9.01795493
Axis 0.00017578 -0.00206608 -0.99999785
Axis point 166.28409718 165.86638626 0.00000000
Rotation angle (degrees) 84.91566624
Shift along axis -9.67490539
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 48
shifted from previous position = 0.0163
rotated from previous position = 0.00824 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08874065 0.99605211 -0.00229820 -13.65972278
-0.99605293 0.08874469 0.00171675 316.80647659
0.00191393 0.00213678 0.99999589 9.01516667
Axis 0.00021085 -0.00211441 -0.99999774
Axis point 166.30341321 165.85800810 0.00000000
Rotation angle (degrees) 84.90884034
Shift along axis -9.68788383
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.0144
rotated from previous position = 0.017 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08851836 0.99607192 -0.00228576 -13.63789691
-0.99607306 0.08852196 0.00152241 316.86261134
0.00171877 0.00214202 0.99999623 9.03638956
Axis 0.00031102 -0.00201016 -0.99999793
Axis point 166.30718933 165.87239580 0.00000000
Rotation angle (degrees) 84.92162976
Shift along axis -9.67755555
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.00629
rotated from previous position = 0.000685 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08852178 0.99607164 -0.00227526 -13.64427859
-0.99607275 0.08852537 0.00152698 316.85934579
0.00172240 0.00213116 0.99999625 9.03283371
Axis 0.00030328 -0.00200671 -0.99999794
Axis point 166.30279779 165.87433654 0.00000000
Rotation angle (degrees) 84.92143285
Shift along axis -9.67279777
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.00774
rotated from previous position = 0.00254 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08856585 0.99606773 -0.00227212 -13.65034328
-0.99606884 0.08856943 0.00152460 316.86113671
0.00171984 0.00212816 0.99999626 9.03300123
Axis 0.00030297 -0.00200386 -0.99999795
Axis point 166.30844794 165.87889146 0.00000000
Rotation angle (degrees) 84.91889775
Shift along axis -9.67206293
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.00411
rotated from previous position = 0.00738 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08860619 0.99606409 -0.00229694 -13.64902774
-0.99606504 0.08861006 0.00164419 316.83511734
0.00184125 0.00214222 0.99999601 9.01650939
Axis 0.00025000 -0.00207726 -0.99999781
Axis point 166.30131806 165.86543202 0.00000000
Rotation angle (degrees) 84.91657604
Shift along axis -9.67805206
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.00803
rotated from previous position = 0.00677 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08855793 0.99606844 -0.00227212 -13.64522075
-0.99606952 0.08856153 0.00153937 316.85408429
0.00173455 0.00212687 0.99999623 9.03721218
Axis 0.00029491 -0.00201124 -0.99999793
Axis point 166.30569329 165.87251071 0.00000000
Rotation angle (degrees) 84.91935349
Shift along axis -9.67848625
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.00979
rotated from previous position = 0.00462 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08852392 0.99607132 -0.00233419 -13.62456766
-0.99607260 0.08852756 0.00150083 316.87227538
0.00170158 0.00219216 0.99999615 9.03932057
Axis 0.00034703 -0.00202583 -0.99999789
Axis point 166.32017969 165.86972075 0.00000000
Rotation angle (degrees) 84.92131107
Shift along axis -9.68596034
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 44
shifted from previous position = 0.0174
rotated from previous position = 0.00408 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08851593 0.99607219 -0.00226375 -13.64624009
-0.99607331 0.08851946 0.00150729 316.86607305
0.00170176 0.00212144 0.99999630 9.03563703
Axis 0.00030828 -0.00199057 -0.99999797
Axis point 166.30457714 165.87877178 0.00000000
Rotation angle (degrees) 84.92176948
Shift along axis -9.67056895
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.0172
rotated from previous position = 0.00598 degrees
atoms outside contour = 520, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08848000 0.99607516 -0.00236117 -13.61386823
-0.99607650 0.08848367 0.00149666 316.87352664
0.00169971 0.00221948 0.99999609 9.03732779
Axis 0.00036283 -0.00203844 -0.99999786
Axis point 166.31855488 165.86403209 0.00000000
Rotation angle (degrees) 84.92383799
Shift along axis -9.68817409
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.169, steps = 48
shifted from previous position = 0.0227
rotated from previous position = 0.0198 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08869368 0.99605650 -0.00220982 -13.68341401
-0.99605712 0.08869755 0.00172037 316.80284504
0.00190959 0.00204852 0.99999608 9.01059198
Axis 0.00016472 -0.00206785 -0.99999785
Axis point 166.28143129 165.86924614 0.00000000
Rotation angle (degrees) 84.91154141
Shift along axis -9.66792847
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#7) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.17, steps = 48
shifted from previous position = 0.0156
rotated from previous position = 0.0225 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#7) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.08842325 0.99608022 -0.00235055 -13.61625677
-0.99608158 0.08842685 0.00147555 316.87482759
0.00167761 0.00221087 0.99999615 9.03211235
Axis 0.00036911 -0.00202200 -0.99999789
Axis point 166.30828806 165.86561029 0.00000000
Rotation angle (degrees) 84.92710291
Shift along axis -9.67784107
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif-
> coot235-0-coot-2.pdb
Chain information for mono2.cif-coot235-0-coot-2.pdb #8
---
Chain | Description
Aa | No description available
> select add #8
3164 atoms, 3236 bonds, 392 residues, 2 models selected
> select subtract #7
1582 atoms, 1618 bonds, 196 residues, 1 model selected
> view matrix models
> #8,0.44779,0.8598,0.24542,-84.329,-0.89214,0.44796,0.058416,186.51,-0.05971,-0.2451,0.96766,47.093
> ui mousemode right "translate selected models"
> view matrix models
> #8,0.44779,0.8598,0.24542,-84.53,-0.89214,0.44796,0.058416,189.77,-0.05971,-0.2451,0.96766,43.617
> view matrix models
> #8,0.44779,0.8598,0.24542,-84.723,-0.89214,0.44796,0.058416,245.43,-0.05971,-0.2451,0.96766,55.805
> view matrix models
> #8,0.44779,0.8598,0.24542,-63.047,-0.89214,0.44796,0.058416,266.62,-0.05971,-0.2451,0.96766,60.906
> ui mousemode right "rotate selected models"
> view matrix models
> #8,-0.331,0.9434,0.0208,77.754,-0.94235,-0.32933,-0.059253,399.46,-0.04905,-0.039214,0.99803,26.242
> view matrix models
> #8,-0.53968,0.84099,0.038624,117.03,-0.83437,-0.52819,-0.15763,429.73,-0.11216,-0.11729,0.98674,47.585
> ui mousemode right "translate selected models"
> view matrix models
> #8,-0.53968,0.84099,0.038624,110.88,-0.83437,-0.52819,-0.15763,425.73,-0.11216,-0.11729,0.98674,47.333
> view matrix models
> #8,-0.53968,0.84099,0.038624,110.32,-0.83437,-0.52819,-0.15763,422.88,-0.11216,-0.11729,0.98674,46.941
> view matrix models
> #8,-0.53968,0.84099,0.038624,112.66,-0.83437,-0.52819,-0.15763,423.65,-0.11216,-0.11729,0.98674,47
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 72
shifted from previous position = 1.61
rotated from previous position = 10.7 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60707910 0.79464118 -0.00060836 135.18895675
-0.79463980 -0.60707614 0.00248227 398.82323093
0.00160319 0.00199036 0.99999673 13.82468988
Axis -0.00030952 -0.00139154 -0.99999898
Axis point 166.18915120 165.98009500 0.00000000
Rotation angle (degrees) 127.37861211
Shift along axis -14.42149703
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0159
rotated from previous position = 0.00221 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60707143 0.79464706 -0.00057920 135.17889689
-0.79464565 -0.60706857 0.00245902 398.83712241
0.00160244 0.00195306 0.99999681 13.81746825
Axis -0.00031835 -0.00137271 -0.99999901
Axis point 166.18876087 165.98928893 0.00000000
Rotation angle (degrees) 127.37805999
Shift along axis -14.40797650
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.00431
rotated from previous position = 0.0138 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60694854 0.79474102 -0.00043651 135.12663226
-0.79473914 -0.60694569 0.00257656 398.81398535
0.00178277 0.00191075 0.99999658 13.79809388
Axis -0.00041889 -0.00139622 -0.99999894
Axis point 166.17530868 165.98435435 0.00000000
Rotation angle (degrees) 127.36920838
Shift along axis -14.41151509
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.00932
rotated from previous position = 0.0124 degrees
atoms outside contour = 515, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60704835 0.79466468 -0.00059668 135.18469839
-0.79466324 -0.60704537 0.00250209 398.82598465
0.00162612 0.00199305 0.99999669 13.81764620
Axis -0.00032029 -0.00139857 -0.99999897
Axis point 166.19240591 165.98089196 0.00000000
Rotation angle (degrees) 127.37639598
Shift along axis -14.41871724
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0101
rotated from previous position = 0.0128 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60694492 0.79474379 -0.00043060 135.12386433
-0.79474190 -0.60694207 0.00257739 398.81406544
0.00178702 0.00190655 0.99999658 13.79762756
Axis -0.00042205 -0.00139518 -0.99999894
Axis point 166.17449231 165.98490598 0.00000000
Rotation angle (degrees) 127.36894720
Shift along axis -14.41105747
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0124
rotated from previous position = 0.0154 degrees
atoms outside contour = 516, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60703461 0.79467512 -0.00066245 135.19562047
-0.79467382 -0.60703153 0.00249996 398.82600622
0.00158452 0.00204399 0.99999665 13.81835716
Axis -0.00028688 -0.00141377 -0.99999896
Axis point 166.20019937 165.97724861 0.00000000
Rotation angle (degrees) 127.37540307
Shift along axis -14.42097649
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0102
rotated from previous position = 0.0109 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60707713 0.79464277 -0.00048196 135.16592552
-0.79464107 -0.60707429 0.00252828 398.81489859
0.00171650 0.00191784 0.99999669 13.81813931
Axis -0.00038409 -0.00138330 -0.99999897
Axis point 166.17538705 165.98184985 0.00000000
Rotation angle (degrees) 127.37847588
Shift along axis -14.42172091
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0157
rotated from previous position = 0.00902 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60696323 0.79472980 -0.00043874 135.12765400
-0.79472793 -0.60696037 0.00257677 398.81331682
0.00178154 0.00191269 0.99999658 13.79711164
Axis -0.00041781 -0.00139688 -0.99999894
Axis point 166.17336743 165.98453638 0.00000000
Rotation angle (degrees) 127.37026693
Shift along axis -14.41064784
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0155
rotated from previous position = 0.0189 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60710343 0.79462251 -0.00070651 135.21769132
-0.79462130 -0.60710028 0.00250016 398.82372646
0.00155776 0.00207926 0.99999662 13.82042856
Axis -0.00026484 -0.00142475 -0.99999895
Axis point 166.20004153 165.97413786 0.00000000
Rotation angle (degrees) 127.38036353
Shift along axis -14.42444767
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.00402
rotated from previous position = 0.00773 degrees
atoms outside contour = 515, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60700104 0.79470075 -0.00067616 135.18724212
-0.79469944 -0.60699789 0.00252627 398.81915825
0.00159720 0.00207079 0.99999658 13.81242991
Axis -0.00028657 -0.00143032 -0.99999894
Axis point 166.19950499 165.97400730 0.00000000
Rotation angle (degrees) 127.37298256
Shift along axis -14.42159688
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.00165
rotated from previous position = 0.0121 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60695824 0.79473358 -0.00049036 135.14420230
-0.79473174 -0.60695523 0.00261011 398.80357297
0.00177672 0.00197394 0.99999647 13.79962163
Axis -0.00040025 -0.00142631 -0.99999890
Axis point 166.18002851 165.97504024 0.00000000
Rotation angle (degrees) 127.36990610
Shift along axis -14.42251663
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.014
rotated from previous position = 0.0187 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60715761 0.79458115 -0.00066567 135.21384750
-0.79457985 -0.60715453 0.00249862 398.81968309
0.00158119 0.00204599 0.99999666 13.81809534
Axis -0.00028483 -0.00141387 -0.99999896
Axis point 166.18855856 165.97608388 0.00000000
Rotation angle (degrees) 127.38427164
Shift along axis -14.42047136
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 28
shifted from previous position = 0.00142
rotated from previous position = 0.00448 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60713603 0.79459764 -0.00065670 135.20566422
-0.79459621 -0.60713282 0.00257131 398.80648757
0.00164445 0.00208295 0.99999648 13.80355805
Axis -0.00030730 -0.00144800 -0.99999890
Axis point 166.18430092 165.97022099 0.00000000
Rotation angle (degrees) 127.38271719
Shift along axis -14.42256363
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 24
shifted from previous position = 0.0121
rotated from previous position = 0.00914 degrees
atoms outside contour = 516, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60720385 0.79454586 -0.00060920 135.20836115
-0.79454454 -0.60720096 0.00244512 398.83549067
0.00157285 0.00196872 0.99999682 13.81911329
Axis -0.00029979 -0.00137314 -0.99999901
Axis point 166.18254191 165.98812705 0.00000000
Rotation angle (degrees) 127.38760671
Shift along axis -14.40729269
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.0209
rotated from previous position = 0.0201 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60697155 0.79472342 -0.00048926 135.14624151
-0.79472161 -0.60696857 0.00259606 398.80437388
0.00176619 0.00196456 0.99999651 13.80371305
Axis -0.00039731 -0.00141901 -0.99999891
Axis point 166.17921389 165.97567754 0.00000000
Rotation angle (degrees) 127.37086488
Shift along axis -14.42330185
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.00528
rotated from previous position = 0.000884 degrees
atoms outside contour = 515, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60697891 0.79471779 -0.00049345 135.15007661
-0.79471601 -0.60697594 0.00258446 398.81046860
0.00175440 0.00196087 0.99999654 13.80250843
Axis -0.00039234 -0.00141425 -0.99999892
Axis point 166.18154200 165.97818174 0.00000000
Rotation angle (degrees) 127.37139523
Shift along axis -14.41953433
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.0187
rotated from previous position = 0.00373 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60700785 0.79469572 -0.00043946 135.13117600
-0.79469384 -0.60700498 0.00258330 398.80933016
0.00178618 0.00191732 0.99999657 13.79434612
Axis -0.00041901 -0.00140031 -0.99999893
Axis point 166.16715649 165.98401511 0.00000000
Rotation angle (degrees) 127.37348409
Shift along axis -14.40941142
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0125
rotated from previous position = 0.00384 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60695513 0.79473598 -0.00044807 135.13096726
-0.79473412 -0.60695225 0.00257958 398.81390694
0.00177813 0.00192179 0.99999657 13.79727046
Axis -0.00041384 -0.00140059 -0.99999893
Axis point 166.17644905 165.98354368 0.00000000
Rotation angle (degrees) 127.36968280
Shift along axis -14.41175394
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.00973
rotated from previous position = 0.0113 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60705033 0.79466319 -0.00057349 135.17402361
-0.79466173 -0.60704742 0.00248510 398.82588194
0.00162668 0.00196432 0.99999675 13.81954787
Axis -0.00032768 -0.00138435 -0.99999899
Axis point 166.18673237 165.98370841 0.00000000
Rotation angle (degrees) 127.37653883
Shift along axis -14.41593993
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0106
rotated from previous position = 0.0087 degrees
atoms outside contour = 516, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60698233 0.79471518 -0.00049168 135.14816726
-0.79471341 -0.60697937 0.00258000 398.81508810
0.00175193 0.00195676 0.99999655 13.79818762
Axis -0.00039211 -0.00141158 -0.99999893
Axis point 166.18120965 165.98116463 0.00000000
Rotation angle (degrees) 127.37164150
Shift along axis -14.41412531
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 28
shifted from previous position = 0.0195
rotated from previous position = 0.0169 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60716864 0.79457273 -0.00065090 135.21280971
-0.79457114 -0.60716525 0.00265926 398.78962919
0.00171777 0.00213181 0.99999625 13.78803511
Axis -0.00033191 -0.00149053 -0.99999883
Axis point 166.17829741 165.96155667 0.00000000
Rotation angle (degrees) 127.38507024
Shift along axis -14.42730699
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 24
shifted from previous position = 0.000597
rotated from previous position = 0.0104 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60709963 0.79462550 -0.00060665 135.18783285
-0.79462407 -0.60709663 0.00250659 398.81585166
0.00162350 0.00200381 0.99999667 13.81899720
Axis -0.00031636 -0.00140327 -0.99999897
Axis point 166.18347190 165.97771686 0.00000000
Rotation angle (degrees) 127.38009286
Shift along axis -14.42139834
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 24
shifted from previous position = 0.00503
rotated from previous position = 0.00141 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60710784 0.79461921 -0.00062890 135.19757439
-0.79461783 -0.60710480 0.00250648 398.81611367
0.00160989 0.00202144 0.99999666 13.82213076
Axis -0.00030520 -0.00140872 -0.99999896
Axis point 166.18718393 165.97579392 0.00000000
Rotation angle (degrees) 127.38068387
Shift along axis -14.42519806
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 28
shifted from previous position = 0.0277
rotated from previous position = 0.0224 degrees
atoms outside contour = 519, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60688759 0.79478760 -0.00035802 135.09528397
-0.79478560 -0.60688491 0.00256228 398.82059077
0.00181919 0.00183957 0.99999665 13.79524349
Axis -0.00045466 -0.00136968 -0.99999896
Axis point 166.17062590 165.99250028 0.00000000
Rotation angle (degrees) 127.36481792
Shift along axis -14.40290900
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 28
shifted from previous position = 0.0223
rotated from previous position = 0.0192 degrees
atoms outside contour = 516, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60703934 0.79467154 -0.00062597 135.19404357
-0.79467017 -0.60703632 0.00249576 398.82836124
0.00160333 0.00201247 0.99999669 13.82104992
Axis -0.00030409 -0.00140265 -0.99999897
Axis point 166.19917257 165.97920343 0.00000000
Rotation angle (degrees) 127.37574466
Shift along axis -14.42156402
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.018
rotated from previous position = 0.0106 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60699032 0.79470909 -0.00047135 135.13906240
-0.79470728 -0.60698741 0.00257443 398.81308533
0.00175982 0.00193724 0.99999657 13.79765488
Axis -0.00040090 -0.00140376 -0.99999893
Axis point 166.17487906 165.98292391 0.00000000
Rotation angle (degrees) 127.37221890
Shift along axis -14.41165628
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.0168
rotated from previous position = 0.00956 degrees
atoms outside contour = 518, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60687228 0.79479928 -0.00039542 135.11096324
-0.79479732 -0.60686950 0.00257607 398.81833638
0.00180749 0.00187762 0.99999660 13.79972531
Axis -0.00043939 -0.00138583 -0.99999894
Axis point 166.18034771 165.98651593 0.00000000
Rotation angle (degrees) 127.36371239
Shift along axis -14.41176952
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#8) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 28
shifted from previous position = 0.0232
rotated from previous position = 0.0164 degrees
atoms outside contour = 517, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#8) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.60704829 0.79466475 -0.00056496 135.16594131
-0.79466323 -0.60704534 0.00251263 398.82037626
0.00165374 0.00197424 0.99999668 13.80984107
Axis -0.00033875 -0.00139600 -0.99999897
Axis point 166.18153299 165.98281143 0.00000000
Rotation angle (degrees) 127.37639279
Shift along axis -14.41236779
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/mono2.cif-
> coot235-0-coot-2.pdb
Chain information for mono2.cif-coot235-0-coot-2.pdb #9
---
Chain | Description
Aa | No description available
> select add #9
3164 atoms, 3236 bonds, 392 residues, 2 models selected
> select subtract #8
1582 atoms, 1618 bonds, 196 residues, 1 model selected
> view matrix models #9,1,0,0,46.831,0,1,0,71.142,0,0,1,21.549
> ui mousemode right "rotate selected models"
> view matrix models
> #9,-0.85971,0.50458,-0.079385,254.61,-0.51009,-0.85623,0.081792,372.97,-0.026702,0.11081,0.99348,11.819
> view matrix models
> #9,-0.94759,0.30356,-0.09961,297.45,-0.29694,-0.95187,-0.07599,386.3,-0.11788,-0.042429,0.99212,45.146
> ui mousemode right "translate selected models"
> view matrix models
> #9,-0.94759,0.30356,-0.09961,294.22,-0.29694,-0.95187,-0.07599,387.47,-0.11788,-0.042429,0.99212,43.902
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 96
shifted from previous position = 2.76
rotated from previous position = 10.4 degrees
atoms outside contour = 526, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98425607 0.17674277 0.00140639 300.26825017
-0.17673885 -0.98425448 0.00254873 358.78859451
0.00183472 0.00226004 0.99999576 18.49552314
Axis -0.00081671 -0.00121173 -0.99999893
Axis point 166.10449346 166.01108643 0.00000000
Rotation angle (degrees) 169.82001048
Shift along axis -19.17548943
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.02
rotated from previous position = 0.00942 degrees
atoms outside contour = 524, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98427107 0.17665858 0.00148251 300.25522199
-0.17665471 -0.98426988 0.00243060 358.80927645
0.00188858 0.00213048 0.99999594 18.49207553
Axis -0.00084945 -0.00114931 -0.99999898
Axis point 166.09092055 166.02908506 0.00000000
Rotation angle (degrees) 169.82491056
Shift along axis -19.15949129
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.0273
rotated from previous position = 0.0182 degrees
atoms outside contour = 523, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428714 0.17657103 0.00122077 300.32575744
-0.17656746 -0.98428514 0.00258643 358.75420906
0.00165827 0.00233024 0.99999591 18.51975101
Axis -0.00072546 -0.00123890 -0.99999897
Axis point 166.11676999 166.00417974 0.00000000
Rotation angle (degrees) 169.82999778
Shift along axis -19.18206709
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 60
shifted from previous position = 0.00958
rotated from previous position = 0.00325 degrees
atoms outside contour = 526, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428309 0.17659343 0.00124736 300.31373257
-0.17658988 -0.98428123 0.00254183 358.77034093
0.00167662 0.00228162 0.99999599 18.51629145
Axis -0.00073678 -0.00121541 -0.99999899
Axis point 166.11344918 166.01128783 0.00000000
Rotation angle (degrees) 169.82869382
Shift along axis -19.17359318
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0105
rotated from previous position = 0.0136 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98425645 0.17674053 0.00142273 300.26035108
-0.17673668 -0.98425502 0.00248658 358.80476300
0.00183981 0.00219599 0.99999589 18.49556645
Axis -0.00082211 -0.00117993 -0.99999897
Axis point 166.10103825 166.01999104 0.00000000
Rotation angle (degrees) 169.82013909
Shift along axis -19.16575799
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0121
rotated from previous position = 0.0159 degrees
atoms outside contour = 526, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428817 0.17656527 0.00122213 300.32196633
-0.17656175 -0.98428623 0.00255884 358.76294962
0.00165473 0.00230286 0.99999598 18.51794815
Axis -0.00072491 -0.00122505 -0.99999899
Axis point 166.11475377 166.00928895 0.00000000
Rotation angle (degrees) 169.83033194
Shift along axis -19.17513806
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0116
rotated from previous position = 0.0111 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98427053 0.17666235 0.00138799 300.28014632
-0.17665843 -0.98426887 0.00256714 358.78011137
0.00181967 0.00228157 0.99999574 18.48801931
Axis -0.00080827 -0.00122179 -0.99999893
Axis point 166.10275008 166.01240138 0.00000000
Rotation angle (degrees) 169.82469207
Shift along axis -19.16905971
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0126
rotated from previous position = 0.00924 degrees
atoms outside contour = 524, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428338 0.17659178 0.00124576 300.31338606
-0.17658823 -0.98428153 0.00254156 358.76875124
0.00167500 0.00228163 0.99999599 18.51849669
Axis -0.00073597 -0.00121535 -0.99999899
Axis point 166.11306092 166.01063335 0.00000000
Rotation angle (degrees) 169.82878946
Shift along axis -19.17552999
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0119
rotated from previous position = 0.0104 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98426716 0.17668103 0.00140147 300.27598646
-0.17667709 -0.98426553 0.00255998 358.78304503
0.00183172 0.00227210 0.99999574 18.48852376
Axis -0.00081471 -0.00121760 -0.99999893
Axis point 166.10245954 166.01266200 0.00000000
Rotation angle (degrees) 169.82360514
Shift along axis -19.16999364
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0122
rotated from previous position = 0.0123 degrees
atoms outside contour = 524, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428604 0.17657722 0.00121543 300.32600539
-0.17657367 -0.98428404 0.00258176 358.75859631
0.00165221 0.00232657 0.99999593 18.51699571
Axis -0.00072259 -0.00123680 -0.99999897
Axis point 166.11768752 166.00590480 0.00000000
Rotation angle (degrees) 169.82963724
Shift along axis -19.17770100
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.00855
rotated from previous position = 0.017 degrees
atoms outside contour = 526, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98425049 0.17677363 0.00143079 300.26366163
-0.17676967 -0.98424896 0.00254047 358.79297301
0.00185734 0.00224754 0.99999575 18.49553158
Axis -0.00082856 -0.00120650 -0.99999893
Axis point 166.10512172 166.01116787 0.00000000
Rotation angle (degrees) 169.81821519
Shift along axis -19.17718257
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.016
rotated from previous position = 0.00379 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98425353 0.17675659 0.00144647 300.25279437
-0.17675270 -0.98425217 0.00247856 358.80865207
0.00186180 0.00218386 0.99999588 18.49327735
Axis -0.00083363 -0.00117485 -0.99999896
Axis point 166.09880503 166.02109743 0.00000000
Rotation angle (degrees) 169.81920550
Shift along axis -19.16510600
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.018
rotated from previous position = 0.0163 degrees
atoms outside contour = 523, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428395 0.17658868 0.00123647 300.32089671
-0.17658512 -0.98428203 0.00256382 358.76134505
0.00166977 0.00230518 0.99999595 18.51912422
Axis -0.00073231 -0.00122689 -0.99999898
Axis point 166.11622494 166.00672467 0.00000000
Rotation angle (degrees) 169.82897044
Shift along axis -19.17919588
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.0253
rotated from previous position = 0.0174 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98425006 0.17677588 0.00145162 300.25281722
-0.17677200 -0.98424874 0.00246453 358.81801047
0.00186443 0.00216910 0.99999591 18.48861484
Axis -0.00083559 -0.00116760 -0.99999897
Axis point 166.10099587 166.02436382 0.00000000
Rotation angle (degrees) 169.81808231
Shift along axis -19.15844139
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0176
rotated from previous position = 0.0219 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98429639 0.17651968 0.00119172 300.33069796
-0.17651621 -0.98429438 0.00256688 358.75906599
0.00162610 0.00231622 0.99999599 18.51563344
Axis -0.00071003 -0.00123044 -0.99999899
Axis point 166.11489633 166.01040064 0.00000000
Rotation angle (degrees) 169.83298438
Shift along axis -19.17028860
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.00245
rotated from previous position = 0.00912 degrees
atoms outside contour = 526, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98427512 0.17663760 0.00127781 300.29745757
-0.17663404 -0.98427340 0.00250719 358.78317054
0.00170058 0.00224206 0.99999604 18.51632039
Axis -0.00075050 -0.00119672 -0.99999900
Axis point 166.10982771 166.01521656 0.00000000
Rotation angle (degrees) 169.82612298
Shift along axis -19.17103881
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0103
rotated from previous position = 0.0081 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98426328 0.17670266 0.00140176 300.26958687
-0.17669879 -0.98426174 0.00252276 358.79429861
0.00182548 0.00223537 0.99999583 18.49223529
Axis -0.00081321 -0.00119897 -0.99999895
Axis point 166.10177860 166.01707737 0.00000000
Rotation angle (degrees) 169.82234405
Shift along axis -19.16657925
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.00446
rotated from previous position = 0.0046 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98426720 0.17668024 0.00147011 300.25671124
-0.17667628 -0.98426587 0.00248738 358.79638972
0.00188645 0.00218851 0.99999582 18.49082250
Axis -0.00084579 -0.00117824 -0.99999895
Axis point 166.09308736 166.02064336 0.00000000
Rotation angle (degrees) 169.82365184
Shift along axis -19.16750650
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 28
shifted from previous position = 0.0113
rotated from previous position = 0.0175 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428794 0.17656670 0.00119982 300.32859715
-0.17656321 -0.98428595 0.00256808 358.76162748
0.00163440 0.00231589 0.99999598 18.51915156
Axis -0.00071417 -0.00123066 -0.99999899
Axis point 166.11823758 166.00815972 0.00000000
Rotation angle (degrees) 169.83024767
Shift along axis -19.17513057
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0129
rotated from previous position = 0.00613 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428147 0.17660211 0.00129058 300.30335400
-0.17659849 -0.98427973 0.00252429 358.78133052
0.00171609 0.00225670 0.99999598 18.50486461
Axis -0.00075762 -0.00120472 -0.99999899
Axis point 166.10936413 166.01670307 0.00000000
Rotation angle (degrees) 169.82819047
Shift along axis -19.16459186
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.00419
rotated from previous position = 0.0142 degrees
atoms outside contour = 524, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98425558 0.17674482 0.00148492 300.24319705
-0.17674086 -0.98425431 0.00247059 358.81085243
0.00189820 0.00216925 0.99999584 18.48703434
Axis -0.00085249 -0.00116916 -0.99999895
Axis point 166.09285344 166.02360458 0.00000000
Rotation angle (degrees) 169.81989269
Shift along axis -19.16247800
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0186
rotated from previous position = 0.015 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428049 0.17660773 0.00127410 300.30938034
-0.17660412 -0.98427869 0.00253732 358.77112058
0.00170218 0.00227242 0.99999597 18.51604130
Axis -0.00074997 -0.00121196 -0.99999898
Axis point 166.11249944 166.01081754 0.00000000
Rotation angle (degrees) 169.82786305
Shift along axis -19.17606009
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.0145
rotated from previous position = 0.00789 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98426786 0.17667719 0.00139216 300.27190678
-0.17667332 -0.98426629 0.00253079 358.78907450
0.00181739 0.00224501 0.99999583 18.49208848
Axis -0.00080875 -0.00120342 -0.99999895
Axis point 166.10040395 166.01627511 0.00000000
Rotation angle (degrees) 169.82382679
Shift along axis -19.16668592
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.00153
rotated from previous position = 0.00523 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98425740 0.17673495 0.00145246 300.25331045
-0.17673102 -0.98425602 0.00249546 358.80241032
0.00187063 0.00219948 0.99999583 18.49055526
Axis -0.00083736 -0.00118304 -0.99999895
Axis point 166.09675545 166.01954729 0.00000000
Rotation angle (degrees) 169.82046628
Shift along axis -19.16643594
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 48
shifted from previous position = 0.00262
rotated from previous position = 0.0187 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98429664 0.17651811 0.00121150 300.32937855
-0.17651474 -0.98429486 0.00248487 358.77881745
0.00163110 0.00223200 0.99999618 18.51986507
Axis -0.00071627 -0.00118855 -0.99999904
Axis point 166.11495101 166.02084340 0.00000000
Rotation angle (degrees) 169.83307329
Shift along axis -19.16139103
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0127
rotated from previous position = 0.0144 degrees
atoms outside contour = 526, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98426568 0.17668941 0.00138425 300.27795196
-0.17668555 -0.98426407 0.00253931 358.78381617
0.00181114 0.00225478 0.99999581 18.49928392
Axis -0.00080518 -0.00120803 -0.99999895
Axis point 166.10434096 166.01238737 0.00000000
Rotation angle (degrees) 169.82311521
Shift along axis -19.17446278
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.00235
rotated from previous position = 0.00772 degrees
atoms outside contour = 526, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98426061 0.17671843 0.00127674 300.29087898
-0.17671469 -0.98425864 0.00261503 358.77257349
0.00171876 0.00234825 0.99999576 18.50070473
Axis -0.00075482 -0.00125066 -0.99999893
Axis point 166.11340422 166.00351626 0.00000000
Rotation angle (degrees) 169.82142214
Shift along axis -19.17605225
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.00806
rotated from previous position = 0.0133 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428366 0.17658891 0.00142357 300.27853441
-0.17658505 -0.98428223 0.00249209 358.78251310
0.00184127 0.00220154 0.99999588 18.49773681
Axis -0.00082267 -0.00118270 -0.99999896
Axis point 166.09520412 166.01968547 0.00000000
Rotation angle (degrees) 169.82896549
Shift along axis -19.16908188
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 40
shifted from previous position = 0.00666
rotated from previous position = 0.00784 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98426562 0.17668938 0.00142924 300.26481816
-0.17668534 -0.98426399 0.00258324 358.77470065
0.00186318 0.00229007 0.99999564 18.48773281
Axis -0.00082963 -0.00122799 -0.99999890
Axis point 166.09712032 166.00826560 0.00000000
Rotation angle (degrees) 169.82312158
Shift along axis -19.17739261
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0104
rotated from previous position = 0.00704 degrees
atoms outside contour = 525, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98425360 0.17675622 0.00144425 300.25405301
-0.17675233 -0.98425223 0.00248200 358.80758761
0.00186021 0.00218765 0.99999587 18.49361930
Axis -0.00083267 -0.00117668 -0.99999896
Axis point 166.09935982 166.02051997 0.00000000
Rotation angle (degrees) 169.81922722
Shift along axis -19.16581318
> fitmap sel inMap #1
Fit molecule mono2.cif-coot235-0-coot-2.pdb (#9) to map TEVVLP_P122_J66.mrc
(#1) using 1582 atoms
average map value = 3.171, steps = 44
shifted from previous position = 0.0121
rotated from previous position = 0.0172 degrees
atoms outside contour = 526, contour level = 2.2169
Position of mono2.cif-coot235-0-coot-2.pdb (#9) relative to
TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
-0.98428748 0.17656909 0.00122474 300.32086647
-0.17656556 -0.98428556 0.00255471 358.76423918
0.00165657 0.00229832 0.99999598 18.51814696
Axis -0.00072603 -0.00122286 -0.99999899
Axis point 166.11460277 166.00971063 0.00000000
Rotation angle (degrees) 169.83011000
Shift along axis -19.17489045
> save /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/krog.pdb relModel #1
> open /Users/nezakoritnik/Desktop/TEV-VLP/h/Coot2/krog.pdb
Summary of feedback from opening /Users/nezakoritnik/Desktop/TEV-
VLP/h/Coot2/krog.pdb
---
warnings | Start residue of secondary structure not found: HELIX 1 1 GLNAa 74
LEUAa 77 1 4
Start residue of secondary structure not found: HELIX 2 2 HISAa 84 TYRAa 98 1
15
Start residue of secondary structure not found: HELIX 3 3 GLUAa 102 ASNAa 119
1 18
Start residue of secondary structure not found: HELIX 4 4 LYSAa 143 GLUAa 147
1 5
Start residue of secondary structure not found: HELIX 5 5 LEUAa 153 ILEAa 156
1 4
83 messages similar to the above omitted
Chain information for krog.pdb
---
Chain | Description
10.1/Aa 10.2/Aa 10.3/Aa 10.4/Aa 10.5/Aa 10.6/Aa 10.7/Aa 10.8/Aa | No
description available
> select subtract #9
Nothing selected
> select add #10
12656 atoms, 12944 bonds, 1568 residues, 9 models selected
> view matrix models #10,1,0,0,2.2387,0,1,0,2.3513,0,0,1,36.733
> ui mousemode right "rotate selected models"
> view matrix models
> #10,0.94277,-0.33326,0.010823,65.05,0.33343,0.94225,-0.031368,-37.274,0.00025564,0.033182,0.99945,31.273
> 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 TEVVLP_P122_J66.mrc (#1) using 12656 atoms
average map value = 0.8274, steps = 228
shifted from previous position = 3.31
rotated from previous position = 1.03 degrees
atoms outside contour = 10383, contour level = 2.2169
Position of krog.pdb (#10.1) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996292 -0.00343088 -0.00789834 3.56699674
0.00355482 0.99986992 0.01573252 -6.02403446
0.00784333 -0.01576002 0.99984504 -0.10235259
Axis -0.87737588 -0.43855964 0.19462018
Axis point 0.00000000 -4.12956083 397.01943836
Rotation angle (degrees) 1.02834302
Shift along axis -0.50761837
Position of krog.pdb (#10.2) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996292 -0.00343088 -0.00789834 3.56699674
0.00355482 0.99986992 0.01573252 -6.02403446
0.00784333 -0.01576002 0.99984504 -0.10235259
Axis -0.87737588 -0.43855964 0.19462018
Axis point 0.00000000 -4.12956083 397.01943836
Rotation angle (degrees) 1.02834302
Shift along axis -0.50761837
Position of krog.pdb (#10.3) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996292 -0.00343088 -0.00789834 3.56699674
0.00355482 0.99986992 0.01573252 -6.02403446
0.00784333 -0.01576002 0.99984504 -0.10235259
Axis -0.87737588 -0.43855964 0.19462018
Axis point 0.00000000 -4.12956083 397.01943836
Rotation angle (degrees) 1.02834302
Shift along axis -0.50761837
Position of krog.pdb (#10.4) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996292 -0.00343088 -0.00789834 3.56699674
0.00355482 0.99986992 0.01573252 -6.02403446
0.00784333 -0.01576002 0.99984504 -0.10235259
Axis -0.87737588 -0.43855964 0.19462018
Axis point 0.00000000 -4.12956083 397.01943836
Rotation angle (degrees) 1.02834302
Shift along axis -0.50761837
Position of krog.pdb (#10.5) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996292 -0.00343088 -0.00789834 3.56699674
0.00355482 0.99986992 0.01573252 -6.02403446
0.00784333 -0.01576002 0.99984504 -0.10235259
Axis -0.87737588 -0.43855964 0.19462018
Axis point 0.00000000 -4.12956083 397.01943836
Rotation angle (degrees) 1.02834302
Shift along axis -0.50761837
Position of krog.pdb (#10.6) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996292 -0.00343088 -0.00789834 3.56699674
0.00355482 0.99986992 0.01573252 -6.02403446
0.00784333 -0.01576002 0.99984504 -0.10235259
Axis -0.87737588 -0.43855964 0.19462018
Axis point 0.00000000 -4.12956083 397.01943836
Rotation angle (degrees) 1.02834302
Shift along axis -0.50761837
Position of krog.pdb (#10.7) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996292 -0.00343088 -0.00789834 3.56699674
0.00355482 0.99986992 0.01573252 -6.02403446
0.00784333 -0.01576002 0.99984504 -0.10235259
Axis -0.87737588 -0.43855964 0.19462018
Axis point 0.00000000 -4.12956083 397.01943836
Rotation angle (degrees) 1.02834302
Shift along axis -0.50761837
Position of krog.pdb (#10.8) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996292 -0.00343088 -0.00789834 3.56699674
0.00355482 0.99986992 0.01573252 -6.02403446
0.00784333 -0.01576002 0.99984504 -0.10235259
Axis -0.87737588 -0.43855964 0.19462018
Axis point 0.00000000 -4.12956083 397.01943836
Rotation angle (degrees) 1.02834302
Shift along axis -0.50761837
> 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 TEVVLP_P122_J66.mrc (#1) using 12656 atoms
average map value = 0.8269, steps = 44
shifted from previous position = 0.103
rotated from previous position = 0.0433 degrees
atoms outside contour = 10373, contour level = 2.2169
Position of krog.pdb (#10.1) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996116 -0.00363940 -0.00802747 3.60621015
0.00377105 0.99985764 0.01644626 -6.28848525
0.00796647 -0.01647589 0.99983253 -0.02028938
Axis -0.88158679 -0.42828459 0.19843652
Axis point 0.00000000 0.65313452 395.13040695
Rotation angle (degrees) 1.06989465
Shift along axis -0.48995205
Position of krog.pdb (#10.2) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996116 -0.00363940 -0.00802747 3.60621015
0.00377105 0.99985764 0.01644626 -6.28848525
0.00796647 -0.01647589 0.99983253 -0.02028938
Axis -0.88158679 -0.42828459 0.19843652
Axis point 0.00000000 0.65313452 395.13040695
Rotation angle (degrees) 1.06989465
Shift along axis -0.48995205
Position of krog.pdb (#10.3) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996116 -0.00363940 -0.00802747 3.60621015
0.00377105 0.99985764 0.01644626 -6.28848525
0.00796647 -0.01647589 0.99983253 -0.02028938
Axis -0.88158679 -0.42828459 0.19843652
Axis point 0.00000000 0.65313452 395.13040695
Rotation angle (degrees) 1.06989465
Shift along axis -0.48995205
Position of krog.pdb (#10.4) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996116 -0.00363940 -0.00802747 3.60621015
0.00377105 0.99985764 0.01644626 -6.28848525
0.00796647 -0.01647589 0.99983253 -0.02028938
Axis -0.88158679 -0.42828459 0.19843652
Axis point 0.00000000 0.65313452 395.13040695
Rotation angle (degrees) 1.06989465
Shift along axis -0.48995205
Position of krog.pdb (#10.5) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996116 -0.00363940 -0.00802747 3.60621015
0.00377105 0.99985764 0.01644626 -6.28848525
0.00796647 -0.01647589 0.99983253 -0.02028938
Axis -0.88158679 -0.42828459 0.19843652
Axis point 0.00000000 0.65313452 395.13040695
Rotation angle (degrees) 1.06989465
Shift along axis -0.48995205
Position of krog.pdb (#10.6) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996116 -0.00363940 -0.00802747 3.60621015
0.00377105 0.99985764 0.01644626 -6.28848525
0.00796647 -0.01647589 0.99983253 -0.02028938
Axis -0.88158679 -0.42828459 0.19843652
Axis point 0.00000000 0.65313452 395.13040695
Rotation angle (degrees) 1.06989465
Shift along axis -0.48995205
Position of krog.pdb (#10.7) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996116 -0.00363940 -0.00802747 3.60621015
0.00377105 0.99985764 0.01644626 -6.28848525
0.00796647 -0.01647589 0.99983253 -0.02028938
Axis -0.88158679 -0.42828459 0.19843652
Axis point 0.00000000 0.65313452 395.13040695
Rotation angle (degrees) 1.06989465
Shift along axis -0.48995205
Position of krog.pdb (#10.8) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996116 -0.00363940 -0.00802747 3.60621015
0.00377105 0.99985764 0.01644626 -6.28848525
0.00796647 -0.01647589 0.99983253 -0.02028938
Axis -0.88158679 -0.42828459 0.19843652
Axis point 0.00000000 0.65313452 395.13040695
Rotation angle (degrees) 1.06989465
Shift along axis -0.48995205
> 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 TEVVLP_P122_J66.mrc (#1) using 12656 atoms
average map value = 0.827, steps = 44
shifted from previous position = 0.0132
rotated from previous position = 0.0248 degrees
atoms outside contour = 10378, contour level = 2.2169
Position of krog.pdb (#10.1) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996147 -0.00354514 -0.00803001 3.58806445
0.00367348 0.99986485 0.01602431 -6.18366659
0.00797211 -0.01605319 0.99983936 -0.08769463
Axis -0.87722642 -0.43761144 0.19740832
Axis point 0.00000000 -3.80731607 398.39054958
Rotation angle (degrees) 1.04762459
Shift along axis -0.45881336
Position of krog.pdb (#10.2) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996147 -0.00354514 -0.00803001 3.58806445
0.00367348 0.99986485 0.01602431 -6.18366659
0.00797211 -0.01605319 0.99983936 -0.08769463
Axis -0.87722642 -0.43761144 0.19740832
Axis point 0.00000000 -3.80731607 398.39054958
Rotation angle (degrees) 1.04762459
Shift along axis -0.45881336
Position of krog.pdb (#10.3) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996147 -0.00354514 -0.00803001 3.58806445
0.00367348 0.99986485 0.01602431 -6.18366659
0.00797211 -0.01605319 0.99983936 -0.08769463
Axis -0.87722642 -0.43761144 0.19740832
Axis point 0.00000000 -3.80731607 398.39054958
Rotation angle (degrees) 1.04762459
Shift along axis -0.45881336
Position of krog.pdb (#10.4) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996147 -0.00354514 -0.00803001 3.58806445
0.00367348 0.99986485 0.01602431 -6.18366659
0.00797211 -0.01605319 0.99983936 -0.08769463
Axis -0.87722642 -0.43761144 0.19740832
Axis point 0.00000000 -3.80731607 398.39054958
Rotation angle (degrees) 1.04762459
Shift along axis -0.45881336
Position of krog.pdb (#10.5) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996147 -0.00354514 -0.00803001 3.58806445
0.00367348 0.99986485 0.01602431 -6.18366659
0.00797211 -0.01605319 0.99983936 -0.08769463
Axis -0.87722642 -0.43761144 0.19740832
Axis point 0.00000000 -3.80731607 398.39054958
Rotation angle (degrees) 1.04762459
Shift along axis -0.45881336
Position of krog.pdb (#10.6) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996147 -0.00354514 -0.00803001 3.58806445
0.00367348 0.99986485 0.01602431 -6.18366659
0.00797211 -0.01605319 0.99983936 -0.08769463
Axis -0.87722642 -0.43761144 0.19740832
Axis point 0.00000000 -3.80731607 398.39054958
Rotation angle (degrees) 1.04762459
Shift along axis -0.45881336
Position of krog.pdb (#10.7) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996147 -0.00354514 -0.00803001 3.58806445
0.00367348 0.99986485 0.01602431 -6.18366659
0.00797211 -0.01605319 0.99983936 -0.08769463
Axis -0.87722642 -0.43761144 0.19740832
Axis point 0.00000000 -3.80731607 398.39054958
Rotation angle (degrees) 1.04762459
Shift along axis -0.45881336
Position of krog.pdb (#10.8) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996147 -0.00354514 -0.00803001 3.58806445
0.00367348 0.99986485 0.01602431 -6.18366659
0.00797211 -0.01605319 0.99983936 -0.08769463
Axis -0.87722642 -0.43761144 0.19740832
Axis point 0.00000000 -3.80731607 398.39054958
Rotation angle (degrees) 1.04762459
Shift along axis -0.45881336
> 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 TEVVLP_P122_J66.mrc (#1) using 12656 atoms
average map value = 0.8269, steps = 48
shifted from previous position = 0.00327
rotated from previous position = 0.00848 degrees
atoms outside contour = 10374, contour level = 2.2169
Position of krog.pdb (#10.1) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996202 -0.00345033 -0.00800393 3.56848702
0.00357914 0.99986341 0.01613568 -6.19151415
0.00794717 -0.01616372 0.99983778 -0.06595260
Axis -0.88002330 -0.43460057 0.19152371
Axis point 0.00000000 -2.58011865 396.14135713
Rotation angle (degrees) 1.05151943
Shift along axis -0.46214763
Position of krog.pdb (#10.2) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996202 -0.00345033 -0.00800393 3.56848702
0.00357914 0.99986341 0.01613568 -6.19151415
0.00794717 -0.01616372 0.99983778 -0.06595260
Axis -0.88002330 -0.43460057 0.19152371
Axis point 0.00000000 -2.58011865 396.14135713
Rotation angle (degrees) 1.05151943
Shift along axis -0.46214763
Position of krog.pdb (#10.3) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996202 -0.00345033 -0.00800393 3.56848702
0.00357914 0.99986341 0.01613568 -6.19151415
0.00794717 -0.01616372 0.99983778 -0.06595260
Axis -0.88002330 -0.43460057 0.19152371
Axis point 0.00000000 -2.58011865 396.14135713
Rotation angle (degrees) 1.05151943
Shift along axis -0.46214763
Position of krog.pdb (#10.4) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996202 -0.00345033 -0.00800393 3.56848702
0.00357914 0.99986341 0.01613568 -6.19151415
0.00794717 -0.01616372 0.99983778 -0.06595260
Axis -0.88002330 -0.43460057 0.19152371
Axis point 0.00000000 -2.58011865 396.14135713
Rotation angle (degrees) 1.05151943
Shift along axis -0.46214763
Position of krog.pdb (#10.5) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996202 -0.00345033 -0.00800393 3.56848702
0.00357914 0.99986341 0.01613568 -6.19151415
0.00794717 -0.01616372 0.99983778 -0.06595260
Axis -0.88002330 -0.43460057 0.19152371
Axis point 0.00000000 -2.58011865 396.14135713
Rotation angle (degrees) 1.05151943
Shift along axis -0.46214763
Position of krog.pdb (#10.6) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996202 -0.00345033 -0.00800393 3.56848702
0.00357914 0.99986341 0.01613568 -6.19151415
0.00794717 -0.01616372 0.99983778 -0.06595260
Axis -0.88002330 -0.43460057 0.19152371
Axis point 0.00000000 -2.58011865 396.14135713
Rotation angle (degrees) 1.05151943
Shift along axis -0.46214763
Position of krog.pdb (#10.7) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996202 -0.00345033 -0.00800393 3.56848702
0.00357914 0.99986341 0.01613568 -6.19151415
0.00794717 -0.01616372 0.99983778 -0.06595260
Axis -0.88002330 -0.43460057 0.19152371
Axis point 0.00000000 -2.58011865 396.14135713
Rotation angle (degrees) 1.05151943
Shift along axis -0.46214763
Position of krog.pdb (#10.8) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99996202 -0.00345033 -0.00800393 3.56848702
0.00357914 0.99986341 0.01613568 -6.19151415
0.00794717 -0.01616372 0.99983778 -0.06595260
Axis -0.88002330 -0.43460057 0.19152371
Axis point 0.00000000 -2.58011865 396.14135713
Rotation angle (degrees) 1.05151943
Shift along axis -0.46214763
> view matrix models
> #10,0.91272,-0.40815,-0.018899,88.115,0.40477,0.90953,-0.094455,-31.582,0.055741,0.078562,0.99535,15.362
> 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 TEVVLP_P122_J66.mrc (#1) using 12656 atoms
average map value = 3.169, steps = 120
shifted from previous position = 5.89
rotated from previous position = 6.39 degrees
atoms outside contour = 4135, contour level = 2.2169
Position of krog.pdb (#10.1) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99654564 0.06157771 0.05572230 -23.25460802
-0.06585844 0.99473147 0.07856186 -4.59910159
-0.05059107 -0.08196027 0.99535072 24.36316982
Axis -0.69523423 0.46045174 -0.55193619
Axis point 0.00000000 296.66557605 81.96931501
Rotation angle (degrees) 6.62927188
Shift along axis 0.60281989
Position of krog.pdb (#10.2) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99654564 0.06157771 0.05572230 -23.25460802
-0.06585844 0.99473147 0.07856186 -4.59910159
-0.05059107 -0.08196027 0.99535072 24.36316982
Axis -0.69523423 0.46045174 -0.55193619
Axis point 0.00000000 296.66557605 81.96931501
Rotation angle (degrees) 6.62927188
Shift along axis 0.60281989
Position of krog.pdb (#10.3) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99654564 0.06157771 0.05572230 -23.25460802
-0.06585844 0.99473147 0.07856186 -4.59910159
-0.05059107 -0.08196027 0.99535072 24.36316982
Axis -0.69523423 0.46045174 -0.55193619
Axis point 0.00000000 296.66557605 81.96931501
Rotation angle (degrees) 6.62927188
Shift along axis 0.60281989
Position of krog.pdb (#10.4) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99654564 0.06157771 0.05572230 -23.25460802
-0.06585844 0.99473147 0.07856186 -4.59910159
-0.05059107 -0.08196027 0.99535072 24.36316982
Axis -0.69523423 0.46045174 -0.55193619
Axis point 0.00000000 296.66557605 81.96931501
Rotation angle (degrees) 6.62927188
Shift along axis 0.60281989
Position of krog.pdb (#10.5) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99654564 0.06157771 0.05572230 -23.25460802
-0.06585844 0.99473147 0.07856186 -4.59910159
-0.05059107 -0.08196027 0.99535072 24.36316982
Axis -0.69523423 0.46045174 -0.55193619
Axis point 0.00000000 296.66557605 81.96931501
Rotation angle (degrees) 6.62927188
Shift along axis 0.60281989
Position of krog.pdb (#10.6) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99654564 0.06157771 0.05572230 -23.25460802
-0.06585844 0.99473147 0.07856186 -4.59910159
-0.05059107 -0.08196027 0.99535072 24.36316982
Axis -0.69523423 0.46045174 -0.55193619
Axis point 0.00000000 296.66557605 81.96931501
Rotation angle (degrees) 6.62927188
Shift along axis 0.60281989
Position of krog.pdb (#10.7) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99654564 0.06157771 0.05572230 -23.25460802
-0.06585844 0.99473147 0.07856186 -4.59910159
-0.05059107 -0.08196027 0.99535072 24.36316982
Axis -0.69523423 0.46045174 -0.55193619
Axis point 0.00000000 296.66557605 81.96931501
Rotation angle (degrees) 6.62927188
Shift along axis 0.60281989
Position of krog.pdb (#10.8) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99654564 0.06157771 0.05572230 -23.25460802
-0.06585844 0.99473147 0.07856186 -4.59910159
-0.05059107 -0.08196027 0.99535072 24.36316982
Axis -0.69523423 0.46045174 -0.55193619
Axis point 0.00000000 296.66557605 81.96931501
Rotation angle (degrees) 6.62927188
Shift along axis 0.60281989
> 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 TEVVLP_P122_J66.mrc (#1) using 12656 atoms
average map value = 3.169, steps = 40
shifted from previous position = 0.00282
rotated from previous position = 0.0126 degrees
atoms outside contour = 4135, contour level = 2.2169
Position of krog.pdb (#10.1) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653010 0.06178582 0.05576990 -23.29552020
-0.06607220 0.99471401 0.07860349 -4.56943149
-0.05061852 -0.08201558 0.99534477 24.38060425
Axis -0.69464629 0.46010924 -0.55296113
Axis point 0.00000000 296.67021384 81.58489676
Rotation angle (degrees) 6.63893263
Shift along axis 0.59818248
Position of krog.pdb (#10.2) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653010 0.06178582 0.05576990 -23.29552020
-0.06607220 0.99471401 0.07860349 -4.56943149
-0.05061852 -0.08201558 0.99534477 24.38060425
Axis -0.69464629 0.46010924 -0.55296113
Axis point 0.00000000 296.67021384 81.58489676
Rotation angle (degrees) 6.63893263
Shift along axis 0.59818248
Position of krog.pdb (#10.3) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653010 0.06178582 0.05576990 -23.29552020
-0.06607220 0.99471401 0.07860349 -4.56943149
-0.05061852 -0.08201558 0.99534477 24.38060425
Axis -0.69464629 0.46010924 -0.55296113
Axis point 0.00000000 296.67021384 81.58489676
Rotation angle (degrees) 6.63893263
Shift along axis 0.59818248
Position of krog.pdb (#10.4) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653010 0.06178582 0.05576990 -23.29552020
-0.06607220 0.99471401 0.07860349 -4.56943149
-0.05061852 -0.08201558 0.99534477 24.38060425
Axis -0.69464629 0.46010924 -0.55296113
Axis point 0.00000000 296.67021384 81.58489676
Rotation angle (degrees) 6.63893263
Shift along axis 0.59818248
Position of krog.pdb (#10.5) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653010 0.06178582 0.05576990 -23.29552020
-0.06607220 0.99471401 0.07860349 -4.56943149
-0.05061852 -0.08201558 0.99534477 24.38060425
Axis -0.69464629 0.46010924 -0.55296113
Axis point 0.00000000 296.67021384 81.58489676
Rotation angle (degrees) 6.63893263
Shift along axis 0.59818248
Position of krog.pdb (#10.6) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653010 0.06178582 0.05576990 -23.29552020
-0.06607220 0.99471401 0.07860349 -4.56943149
-0.05061852 -0.08201558 0.99534477 24.38060425
Axis -0.69464629 0.46010924 -0.55296113
Axis point 0.00000000 296.67021384 81.58489676
Rotation angle (degrees) 6.63893263
Shift along axis 0.59818248
Position of krog.pdb (#10.7) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653010 0.06178582 0.05576990 -23.29552020
-0.06607220 0.99471401 0.07860349 -4.56943149
-0.05061852 -0.08201558 0.99534477 24.38060425
Axis -0.69464629 0.46010924 -0.55296113
Axis point 0.00000000 296.67021384 81.58489676
Rotation angle (degrees) 6.63893263
Shift along axis 0.59818248
Position of krog.pdb (#10.8) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653010 0.06178582 0.05576990 -23.29552020
-0.06607220 0.99471401 0.07860349 -4.56943149
-0.05061852 -0.08201558 0.99534477 24.38060425
Axis -0.69464629 0.46010924 -0.55296113
Axis point 0.00000000 296.67021384 81.58489676
Rotation angle (degrees) 6.63893263
Shift along axis 0.59818248
> 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 TEVVLP_P122_J66.mrc (#1) using 12656 atoms
average map value = 3.169, steps = 44
shifted from previous position = 0.00276
rotated from previous position = 0.00103 degrees
atoms outside contour = 4135, contour level = 2.2169
Position of krog.pdb (#10.1) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653124 0.06176906 0.05576807 -23.29273074
-0.06605506 0.99471553 0.07859859 -4.56915573
-0.05061840 -0.08200971 0.99534526 24.38082212
Axis -0.69468122 0.46015479 -0.55287935
Axis point 0.00000000 296.69837630 81.58686609
Rotation angle (degrees) 6.63815047
Shift along axis 0.59885052
Position of krog.pdb (#10.2) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653124 0.06176906 0.05576807 -23.29273074
-0.06605506 0.99471553 0.07859859 -4.56915573
-0.05061840 -0.08200971 0.99534526 24.38082212
Axis -0.69468122 0.46015479 -0.55287935
Axis point 0.00000000 296.69837630 81.58686609
Rotation angle (degrees) 6.63815047
Shift along axis 0.59885052
Position of krog.pdb (#10.3) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653124 0.06176906 0.05576807 -23.29273074
-0.06605506 0.99471553 0.07859859 -4.56915573
-0.05061840 -0.08200971 0.99534526 24.38082212
Axis -0.69468122 0.46015479 -0.55287935
Axis point 0.00000000 296.69837630 81.58686609
Rotation angle (degrees) 6.63815047
Shift along axis 0.59885052
Position of krog.pdb (#10.4) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653124 0.06176906 0.05576807 -23.29273074
-0.06605506 0.99471553 0.07859859 -4.56915573
-0.05061840 -0.08200971 0.99534526 24.38082212
Axis -0.69468122 0.46015479 -0.55287935
Axis point 0.00000000 296.69837630 81.58686609
Rotation angle (degrees) 6.63815047
Shift along axis 0.59885052
Position of krog.pdb (#10.5) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653124 0.06176906 0.05576807 -23.29273074
-0.06605506 0.99471553 0.07859859 -4.56915573
-0.05061840 -0.08200971 0.99534526 24.38082212
Axis -0.69468122 0.46015479 -0.55287935
Axis point 0.00000000 296.69837630 81.58686609
Rotation angle (degrees) 6.63815047
Shift along axis 0.59885052
Position of krog.pdb (#10.6) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653124 0.06176906 0.05576807 -23.29273074
-0.06605506 0.99471553 0.07859859 -4.56915573
-0.05061840 -0.08200971 0.99534526 24.38082212
Axis -0.69468122 0.46015479 -0.55287935
Axis point 0.00000000 296.69837630 81.58686609
Rotation angle (degrees) 6.63815047
Shift along axis 0.59885052
Position of krog.pdb (#10.7) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653124 0.06176906 0.05576807 -23.29273074
-0.06605506 0.99471553 0.07859859 -4.56915573
-0.05061840 -0.08200971 0.99534526 24.38082212
Axis -0.69468122 0.46015479 -0.55287935
Axis point 0.00000000 296.69837630 81.58686609
Rotation angle (degrees) 6.63815047
Shift along axis 0.59885052
Position of krog.pdb (#10.8) relative to TEVVLP_P122_J66.mrc (#1) coordinates:
Matrix rotation and translation
0.99653124 0.06176906 0.05576807 -23.29273074
-0.06605506 0.99471553 0.07859859 -4.56915573
-0.05061840 -0.08200971 0.99534526 24.38082212
Axis -0.69468122 0.46015479 -0.55287935
Axis point 0.00000000 296.69837630 81.58686609
Rotation angle (degrees) 6.63815047
Shift along axis 0.59885052
> fitmap sel inMap #1
===== 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 days, 9 hours, 40 minutes
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 |
| 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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