![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 8 hours ago
Closed 4 hours ago
#20234 closed defect (duplicate)
Crash in QDockWidget::event() in Qt 6.9.2
| Reported by: | Owned by: | Tom Goddard | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-26.4.1-arm64-arm-64bit
ChimeraX Version: 1.11.1 (2026-01-23 05:51:34 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault
Thread 0x0000000310c37000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 331 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 629 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1399 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000030e833000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 331 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 629 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1399 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x000000030c2f3000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 331 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 629 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1399 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Thread 0x00000003035df000 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 331 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 629 in wait
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1399 in run
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1045 in _bootstrap_inner
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/threading.py", line 1002 in _bootstrap
Current thread 0x00000001f64d18c0 (most recent call first):
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 414 in event_loop
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1064 in init
File "/Applications/ChimeraX-1.11.1.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1229 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.map._map, chimerax.pdb_lib._load_libs, chimerax.surface._surface, psutil._psutil_osx, psutil._psutil_posix, PIL._imaging, 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, lz4._version, lz4.frame._frame, msgpack._cmsgpack, chimerax.core._serialize, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.pdb._pdbio, lxml._elementpath, lxml.etree, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw (total: 58)
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"codeSigningMonitor" : 2,
"incident" : "60E283BC-DCB0-419A-BF8B-99F348CF7B15",
"pid" : 27941,
"translated" : false,
"cpuType" : "ARM-64",
"procLaunch" : "2026-04-28 14:16:06.2759 +0100",
"procStartAbsTime" : 1361139053368,
"procExitAbsTime" : 1375150505420,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.11.1.app\/Contents\/MacOS\/ChimeraX",
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"crashReporterKey" : "F757CBBA-C716-7781-2B0E-A61AE18E0FF4",
"appleIntelligenceStatus" : {"state":"available"},
"developerMode" : 1,
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"codeSigningAuxiliaryInfo" : 0,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRCuD\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkf\/f\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
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"wakeTime" : 24058,
"sleepWakeUUID" : "60A71D30-1A34-49F0-9981-63A684132CB9",
"sip" : "enabled",
"vmRegionInfo" : "0x8 is not in any region. Bytes before following region: 4378198008
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
UNUSED SPACE AT START
--->
__TEXT 104f60000-104f64000 [ 16K] r-x\/r-x SM=COW \/Applications\/ChimeraX-1.11.1.app\/Contents\/MacOS\/ChimeraX",
"exception" : {"codes":"0x0000000000000001, 0x0000000000000008","rawCodes":[1,8],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x0000000000000008"},
"termination" : {"flags":0,"code":11,"namespace":"SIGNAL","indicator":"Segmentation fault: 11","byProc":"ChimeraX","byPid":27941},
"vmregioninfo" : "0x8 is not in any region. Bytes before following region: 4378198008
REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL
UNUSED SPACE AT START
--->
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page table in kernel 1586K 1
shared memory 3600K 44
=========== ======= =======
TOTAL 4.3G 7195
TOTAL, minus reserved VM space 3.9G 7195
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"logWritingSignature" : "a05a390aa82a7db582d69a66b4cff51870e02139",
"roots_installed" : 0,
"bug_type" : "309",
"trmStatus" : 1,
"trialInfo" : {
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{
"rolloutId" : "64c025b28b7f0e739e4fbe58",
"factorPackIds" : [
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"deploymentId" : 240000041
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{
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===== Log before crash start =====
UCSF ChimeraX version: 1.11.1 (2026-01-23)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open /Users/Ania/Desktop/HPI/DALI12_Viridis.cxs format session
> view name session-start
opened ChimeraX session
> matchmaker #2-25 to #1 showAlignment true
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACFOPQ_RS19755__3828___WP_380080940.1_____GCF_042649355.1____Deinococcus_antarcticus_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#2), sequence alignment score = 174.9
Alignment identifier is 16
Showing conservation header ("seq_conservation" residue attribute) for
alignment 16
Hiding conservation header for alignment 16
Chains used in RMSD evaluation for alignment 16:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACFOPQ_RS19755__3828___WP_380080940.1_____GCF_042649355.1____Deinococcus_antarcticus_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#2/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 16
RMSD between 43 pruned atom pairs is 0.933 angstroms; (across all 111 pairs:
6.059)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#3), sequence alignment score = 112
Alignment identifier is 17
Showing conservation header ("seq_conservation" residue attribute) for
alignment 17
Hiding conservation header for alignment 17
Chains used in RMSD evaluation for alignment 17:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 17
RMSD between 5 pruned atom pairs is 1.560 angstroms; (across all 99 pairs:
16.760)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACTQ9L_RS01385__266___WP_456132272.1_____GCF_053878665.1____Deinococcus_wulumuqiensis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb,
chain A (#4), sequence alignment score = 516.2
Alignment identifier is 18
Showing conservation header ("seq_conservation" residue attribute) for
alignment 18
Hiding conservation header for alignment 18
Chains used in RMSD evaluation for alignment 18:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACTQ9L_RS01385__266___WP_456132272.1_____GCF_053878665.1____Deinococcus_wulumuqiensis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb
#4/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 18
RMSD between 108 pruned atom pairs is 0.524 angstroms; (across all 117 pairs:
1.674)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACXXDI_RS00680__132___WP_458578950.1_____GCF_054352955.1____Deinococcus_sp_PESE_13_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain5.pdb,
chain A (#5), sequence alignment score = 390.3
Alignment identifier is 19
Showing conservation header ("seq_conservation" residue attribute) for
alignment 19
Hiding conservation header for alignment 19
Chains used in RMSD evaluation for alignment 19:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACXXDI_RS00680__132___WP_458578950.1_____GCF_054352955.1____Deinococcus_sp_PESE_13_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain5.pdb
#5/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 19
RMSD between 95 pruned atom pairs is 0.708 angstroms; (across all 116 pairs:
2.958)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ASF71_RS17770__3596___WP_056302518.1_____GCF_001424185.1____Deinococcus_sp_Leaf326_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#6), sequence alignment score = 469.7
Alignment identifier is 20
Showing conservation header ("seq_conservation" residue attribute) for
alignment 20
Hiding conservation header for alignment 20
Chains used in RMSD evaluation for alignment 20:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ASF71_RS17770__3596___WP_056302518.1_____GCF_001424185.1____Deinococcus_sp_Leaf326_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#6/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 20
RMSD between 95 pruned atom pairs is 0.789 angstroms; (across all 116 pairs:
2.259)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
B9A95_RS33850__1592___WP_170928682.1_____GCF_900176165.1____Deinococcus_hopiensis_KR_140_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#7), sequence alignment score = 158.4
Alignment identifier is 21
Showing conservation header ("seq_conservation" residue attribute) for
alignment 21
Hiding conservation header for alignment 21
Chains used in RMSD evaluation for alignment 21:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
B9A95_RS33850__1592___WP_170928682.1_____GCF_900176165.1____Deinococcus_hopiensis_KR_140_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#7/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 21
RMSD between 74 pruned atom pairs is 1.067 angstroms; (across all 114 pairs:
6.727)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
C3K08_RS11605__2296___WP_104991448.1_____GCF_002953415.1____Deinococcus_sp_NW_56_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb,
chain A (#8), sequence alignment score = 152.8
Alignment identifier is 22
Showing conservation header ("seq_conservation" residue attribute) for
alignment 22
Hiding conservation header for alignment 22
Chains used in RMSD evaluation for alignment 22:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
C3K08_RS11605__2296___WP_104991448.1_____GCF_002953415.1____Deinococcus_sp_NW_56_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb
#8/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 22
RMSD between 51 pruned atom pairs is 0.947 angstroms; (across all 110 pairs:
6.406)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
D3875_RS15995__2322___WP_119765318.1_____GCF_003590815.1____Deinococcus_cavernae_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#9), sequence alignment score = 162.9
Alignment identifier is 23
Showing conservation header ("seq_conservation" residue attribute) for
alignment 23
Hiding conservation header for alignment 23
Chains used in RMSD evaluation for alignment 23:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
D3875_RS15995__2322___WP_119765318.1_____GCF_003590815.1____Deinococcus_cavernae_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#9/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 23
RMSD between 70 pruned atom pairs is 1.087 angstroms; (across all 114 pairs:
5.182)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
DEIPH_RS07230__1474___WP_034356122.1_____GCF_000599865.1____Deinococcus_phoenicis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#10), sequence alignment score = 145
Alignment identifier is 24
Showing conservation header ("seq_conservation" residue attribute) for
alignment 24
Hiding conservation header for alignment 24
Chains used in RMSD evaluation for alignment 24:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
DEIPH_RS07230__1474___WP_034356122.1_____GCF_000599865.1____Deinococcus_phoenicis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#10/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 24
RMSD between 30 pruned atom pairs is 0.794 angstroms; (across all 111 pairs:
7.058)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
DVJ83_RS10370__1923___WP_162865520.1_____GCF_003345215.1____Deinococcus_wulumuqiensis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#11), sequence alignment score = 130.9
Alignment identifier is 25
Showing conservation header ("seq_conservation" residue attribute) for
alignment 25
Hiding conservation header for alignment 25
Chains used in RMSD evaluation for alignment 25:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
DVJ83_RS10370__1923___WP_162865520.1_____GCF_003345215.1____Deinococcus_wulumuqiensis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#11/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 25
RMSD between 49 pruned atom pairs is 0.975 angstroms; (across all 112 pairs:
7.396)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
E5Q07_RS12670__2466___WP_010889133.1_____GCF_020546805.1____Deinococcus_radiodurans_R1_ATCC_13939_DSM_20539_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#12), sequence alignment score = 135.5
Alignment identifier is 26
Showing conservation header ("seq_conservation" residue attribute) for
alignment 26
Hiding conservation header for alignment 26
Chains used in RMSD evaluation for alignment 26:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
E5Q07_RS12670__2466___WP_010889133.1_____GCF_020546805.1____Deinococcus_radiodurans_R1_ATCC_13939_DSM_20539_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#12/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 26
RMSD between 48 pruned atom pairs is 0.986 angstroms; (across all 110 pairs:
8.206)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
E5Z01_RS09650__466___WP_135229161.1_____GCF_004634215.1____Deinococcus_fonticola_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#13), sequence alignment score = 190.7
Alignment identifier is 27
Showing conservation header ("seq_conservation" residue attribute) for
alignment 27
Hiding conservation header for alignment 27
Chains used in RMSD evaluation for alignment 27:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
E5Z01_RS09650__466___WP_135229161.1_____GCF_004634215.1____Deinococcus_fonticola_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#13/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 27
RMSD between 64 pruned atom pairs is 1.020 angstroms; (across all 113 pairs:
7.144)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
H565_RS0105180__1909___WP_027460105.1_____GCF_000482805.1____Deinococcus_murrayi_DSM_11303_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb,
chain A (#14), sequence alignment score = 153.1
Alignment identifier is 28
Showing conservation header ("seq_conservation" residue attribute) for
alignment 28
Hiding conservation header for alignment 28
Chains used in RMSD evaluation for alignment 28:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
H565_RS0105180__1909___WP_027460105.1_____GCF_000482805.1____Deinococcus_murrayi_DSM_11303_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb
#14/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 28
RMSD between 51 pruned atom pairs is 0.975 angstroms; (across all 111 pairs:
6.729)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
L1280_RS10800__2128___WP_253582275.1_____GCF_024171495.1____Deinococcus_sp_HSC_46F16_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#15), sequence alignment score = 136.5
Alignment identifier is 29
Showing conservation header ("seq_conservation" residue attribute) for
alignment 29
Hiding conservation header for alignment 29
Chains used in RMSD evaluation for alignment 29:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
L1280_RS10800__2128___WP_253582275.1_____GCF_024171495.1____Deinococcus_sp_HSC_46F16_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#15/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 29
RMSD between 52 pruned atom pairs is 0.944 angstroms; (across all 110 pairs:
8.095)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
WDJ50_RS10175__1983___WP_339094749.1_____GCF_037914965.1____Deinococcus_sp_VB142_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#16), sequence alignment score = 377.2
Alignment identifier is 30
Showing conservation header ("seq_conservation" residue attribute) for
alignment 30
Hiding conservation header for alignment 30
Chains used in RMSD evaluation for alignment 30:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
WDJ50_RS10175__1983___WP_339094749.1_____GCF_037914965.1____Deinococcus_sp_VB142_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#16/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 30
RMSD between 98 pruned atom pairs is 0.757 angstroms; (across all 115 pairs:
1.981)
> show #3 models
> hide #3 models
> show #3 models
> matchmaker #2-25 to #1 showAlignment true
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACFOPQ_RS19755__3828___WP_380080940.1_____GCF_042649355.1____Deinococcus_antarcticus_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#2), sequence alignment score = 174.9
RMSD between 43 pruned atom pairs is 0.933 angstroms; (across all 111 pairs:
6.059)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#3), sequence alignment score = 112
RMSD between 5 pruned atom pairs is 1.560 angstroms; (across all 99 pairs:
16.760)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACTQ9L_RS01385__266___WP_456132272.1_____GCF_053878665.1____Deinococcus_wulumuqiensis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb,
chain A (#4), sequence alignment score = 516.2
RMSD between 108 pruned atom pairs is 0.524 angstroms; (across all 117 pairs:
1.674)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACXXDI_RS00680__132___WP_458578950.1_____GCF_054352955.1____Deinococcus_sp_PESE_13_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain5.pdb,
chain A (#5), sequence alignment score = 390.3
RMSD between 95 pruned atom pairs is 0.708 angstroms; (across all 116 pairs:
2.958)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ASF71_RS17770__3596___WP_056302518.1_____GCF_001424185.1____Deinococcus_sp_Leaf326_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#6), sequence alignment score = 469.7
RMSD between 95 pruned atom pairs is 0.789 angstroms; (across all 116 pairs:
2.259)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
B9A95_RS33850__1592___WP_170928682.1_____GCF_900176165.1____Deinococcus_hopiensis_KR_140_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#7), sequence alignment score = 158.4
RMSD between 74 pruned atom pairs is 1.067 angstroms; (across all 114 pairs:
6.727)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
C3K08_RS11605__2296___WP_104991448.1_____GCF_002953415.1____Deinococcus_sp_NW_56_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb,
chain A (#8), sequence alignment score = 152.8
RMSD between 51 pruned atom pairs is 0.947 angstroms; (across all 110 pairs:
6.406)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
D3875_RS15995__2322___WP_119765318.1_____GCF_003590815.1____Deinococcus_cavernae_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#9), sequence alignment score = 162.9
RMSD between 70 pruned atom pairs is 1.087 angstroms; (across all 114 pairs:
5.182)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
DEIPH_RS07230__1474___WP_034356122.1_____GCF_000599865.1____Deinococcus_phoenicis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#10), sequence alignment score = 145
RMSD between 30 pruned atom pairs is 0.794 angstroms; (across all 111 pairs:
7.058)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
DVJ83_RS10370__1923___WP_162865520.1_____GCF_003345215.1____Deinococcus_wulumuqiensis_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#11), sequence alignment score = 130.9
RMSD between 49 pruned atom pairs is 0.975 angstroms; (across all 112 pairs:
7.396)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
E5Q07_RS12670__2466___WP_010889133.1_____GCF_020546805.1____Deinococcus_radiodurans_R1_ATCC_13939_DSM_20539_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#12), sequence alignment score = 135.5
RMSD between 48 pruned atom pairs is 0.986 angstroms; (across all 110 pairs:
8.206)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
E5Z01_RS09650__466___WP_135229161.1_____GCF_004634215.1____Deinococcus_fonticola_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#13), sequence alignment score = 190.7
RMSD between 64 pruned atom pairs is 1.020 angstroms; (across all 113 pairs:
7.144)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
H565_RS0105180__1909___WP_027460105.1_____GCF_000482805.1____Deinococcus_murrayi_DSM_11303_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb,
chain A (#14), sequence alignment score = 153.1
RMSD between 51 pruned atom pairs is 0.975 angstroms; (across all 111 pairs:
6.729)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
L1280_RS10800__2128___WP_253582275.1_____GCF_024171495.1____Deinococcus_sp_HSC_46F16_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#15), sequence alignment score = 136.5
RMSD between 52 pruned atom pairs is 0.944 angstroms; (across all 110 pairs:
8.095)
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
WDJ50_RS10175__1983___WP_339094749.1_____GCF_037914965.1____Deinococcus_sp_VB142_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#16), sequence alignment score = 377.2
RMSD between 98 pruned atom pairs is 0.757 angstroms; (across all 115 pairs:
1.981)
> matchmaker #3 to #1 showAlignment true
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#3), sequence alignment score = 112
Alignment identifier is 1
Showing conservation header ("seq_conservation" residue attribute) for
alignment 1
Hiding conservation header for alignment 1
Chains used in RMSD evaluation for alignment 1:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 1
RMSD between 5 pruned atom pairs is 1.560 angstroms; (across all 99 pairs:
16.760)
> hide #2 models
> hide #4 models
> hide #5 models
> hide #6 models
> hide #7 models
> hide #8 models
> hide #9 models
> hide #10 models
> hide #11 models
> hide #12 models
> hide #13 models
> hide #14 models
> hide #15 models
> hide #16 models
> matchmaker #3 to #1
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#3), sequence alignment score = 112
RMSD between 5 pruned atom pairs is 1.560 angstroms; (across all 99 pairs:
16.760)
> ui tool show Matchmaker
> matchmaker #3 to #1 showAlignment true
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#3), sequence alignment score = 112
Alignment identifier is 2
Showing conservation header ("seq_conservation" residue attribute) for
alignment 2
Hiding conservation header for alignment 2
Chains used in RMSD evaluation for alignment 2:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 2
RMSD between 5 pruned atom pairs is 1.560 angstroms; (across all 99 pairs:
16.760)
> matchmaker #3 to #1 showAlignment true
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#3), sequence alignment score = 112
Alignment identifier is 3
Showing conservation header ("seq_conservation" residue attribute) for
alignment 3
Hiding conservation header for alignment 3
Chains used in RMSD evaluation for alignment 3:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 3
RMSD between 5 pruned atom pairs is 1.560 angstroms; (across all 99 pairs:
16.760)
> matchmaker #3 to #1 cutoffDistance none showAlignment true
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
No iteration
Matchmaker
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb,
chain A (#1) with
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A (#3), sequence alignment score = 112
Alignment identifier is 4
Showing conservation header ("seq_conservation" residue attribute) for
alignment 4
Hiding conservation header for alignment 4
Chains used in RMSD evaluation for alignment 4:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A
Showing rmsd header ("seq_rmsd" residue attribute) for alignment 4
RMSD between 99 atom pairs is 15.829 angstroms
> open "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain1.pdb"
> "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb"
> "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb"
> "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb"
> "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain5.pdb"
> "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain6.pdb"
> "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain7.pdb"
> "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain8.pdb"
> "/Users/Ania/Library/CloudStorage/Dropbox/Ania&
> Kacper/HPI_Deinococcaceae_ColabFold_2/HPI_Colabfold/PDB_all_HPI_subdomains_WITH_ADDITIONAL/ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain9.pdb"
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain1.pdb
#18
---
Chain | Description
A | No description available
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain2.pdb
#19
---
Chain | Description
A | No description available
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#20
---
Chain | Description
A | No description available
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#21
---
Chain | Description
A | No description available
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain5.pdb
#22
---
Chain | Description
A | No description available
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain6.pdb
#23
---
Chain | Description
A | No description available
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain7.pdb
#24
---
Chain | Description
A | No description available
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain8.pdb
#25
---
Chain | Description
A | No description available
Chain information for
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain9.pdb
#26
---
Chain | Description
A | No description available
Associated
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
chain A to
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A with 0 mismatches
Chains used in RMSD evaluation for alignment 17:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#21/A
Associated
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
chain A to
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A with 0 mismatches
Chains used in RMSD evaluation for alignment 1:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#21/A
Associated
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
chain A to
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A with 0 mismatches
Chains used in RMSD evaluation for alignment 2:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#21/A
Associated
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
chain A to
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A with 0 mismatches
Chains used in RMSD evaluation for alignment 3:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#21/A
Associated
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
chain A to
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb,
chain A with 0 mismatches
Chains used in RMSD evaluation for alignment 4:
ABEA67_RS16475__3224___WP_345467308.1_____GCF_039545055.1____Deinococcus_carri_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain3.pdb
#1/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#3/A,
ACINK0_RS03820__731___WP_414657361.1_____GCF_047523805.1____Deinococcus_sp_VB343_relaxed_rank_001_alphafold2_ptm_model_1_seed_000_subdomain4.pdb
#21/A
Computing secondary structure
> select #3/A:351 #21/A:351
34 atoms, 32 bonds, 2 residues, 2 models selected
> hide #1 models
> hide #3 models
> show #3 models
> hide #3 models
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.11.1 (2026-01-23)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 90.5
OpenGL renderer: Apple M5 Pro
OpenGL vendor: Apple
Python: 3.11.9
Locale: en_US.UTF-8
Qt version: PyQt6 6.9.1, Qt 6.9.0
Qt runtime version: 6.9.2
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac17,9
Model Number: Z1ML0017VB/A
Chip: Apple M5 Pro
Total Number of Cores: 18 (6 Super and 12 Performance)
Memory: 64 GB
System Firmware Version: 18000.101.7
OS Loader Version: 18000.101.7
Software:
System Software Overview:
System Version: macOS 26.4.1 (25E253)
Kernel Version: Darwin 25.4.0
Time since boot: 1 day, 3 hours, 27 minutes
Graphics/Displays:
Apple M5 Pro:
Chipset Model: Apple M5 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 20
Vendor: Apple (0x106b)
Metal Support: Metal 4
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: Yes
Connection Type: Internal
Installed Packages:
aiohappyeyeballs: 2.6.1
aiohttp: 3.13.1
aiosignal: 1.4.0
alabaster: 1.0.0
annotated-types: 0.7.0
anyio: 4.12.1
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.1
attrs: 25.4.0
babel: 2.17.0
beautifulsoup4: 4.13.5
blockdiag: 3.0.0
blosc2: 3.12.2
build: 1.3.0
certifi: 2025.7.14
cftime: 1.6.5
charset-normalizer: 3.4.4
ChimeraX-AddCharge: 1.5.20
ChimeraX-AddH: 2.2.8
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.1.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Animations: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.61.4
ChimeraX-AtomicLibrary: 14.2.1
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.3
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-Boltz: 1.1
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.2
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.6.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.5
ChimeraX-ChemGroup: 2.0.2
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.8
ChimeraX-CommandLine: 1.3.0
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.11.1
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.5
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.4
ChimeraX-Dicom: 1.2.7
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.4
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5.3
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.4
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.7.3
ChimeraX-Label: 1.2
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.2
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.2.2
ChimeraX-MCopy: 1.0
ChimeraX-MCPServer: 0.1.0
ChimeraX-MDcrds: 2.17.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.3.2
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.22
ChimeraX-ModelPanel: 1.6
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: 1.0.1
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.15.2
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.12
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.5
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.4
ChimeraX-ProfileGrids: 1.4.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.5
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.3
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.2
ChimeraX-Scenes: 0.3.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.10
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17.3
ChimeraX-Shape: 1.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.19.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5.2
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.49.1
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 1.5.2
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: 1.1.5
ChimeraX-Zone: 1.0.1
click: 8.3.1
colorama: 0.4.6
comm: 0.2.3
contourpy: 1.3.3
coverage: 7.13.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.1.4
debugpy: 1.8.19
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.1
filelock: 3.19.1
fonttools: 4.61.1
frozenlist: 1.8.0
funcparserlib: 2.0.0a0
glfw: 2.10.0
grako: 3.16.5
h11: 0.16.0
h5py: 3.15.1
html2text: 2025.4.15
httpcore: 1.0.9
httpx: 0.28.1
httpx-sse: 0.4.3
idna: 3.11
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.3.0
ipykernel: 6.30.1
ipython: 9.5.0
ipython_pygments_lexers: 1.1.1
ipywidgets: 8.1.8
jedi: 0.19.2
Jinja2: 3.1.6
jsonschema: 4.26.0
jsonschema-specifications: 2025.9.1
jupyter_client: 8.6.3
jupyter_core: 5.9.1
jupyterlab_widgets: 3.0.16
kiwisolver: 1.4.9
line_profiler: 5.0.0
lxml: 6.0.2
lz4: 4.3.2
Markdown: 3.8.2
MarkupSafe: 3.0.3
matplotlib: 3.10.7
matplotlib-inline: 0.2.1
mcp: 1.18.0
msgpack: 1.1.1
multidict: 6.7.0
ndindex: 1.10.1
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.14.1
numpy: 1.26.4
OpenMM: 8.2.0
openvr: 1.26.701
packaging: 25.0
ParmEd: 4.2.2
parso: 0.8.5
pep517: 0.13.1
pexpect: 4.9.0
pickleshare: 0.7.5
pillow: 11.3.0
pip: 25.2
pkginfo: 1.12.1.2
platformdirs: 4.5.1
pluggy: 1.6.0
prompt_toolkit: 3.0.52
propcache: 0.4.1
psutil: 7.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.1
pycollada: 0.8
pydantic: 2.12.5
pydantic-settings: 2.12.0
pydantic_core: 2.41.5
pydicom: 2.4.4
Pygments: 2.18.0
pynmrstar: 3.3.6
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.3.2
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.9.1
PyQt6-Qt6: 6.9.2
PyQt6-WebEngine-commercial: 6.9.0
PyQt6-WebEngine-Qt6: 6.9.2
PyQt6_sip: 13.10.2
pytest: 9.0.2
pytest-cov: 7.0.0
python-dateutil: 2.9.0.post0
python-dotenv: 1.2.1
python-multipart: 0.0.21
pyzmq: 27.1.0
qtconsole: 5.7.0
QtPy: 2.4.3
qtshim: 1.2
RandomWords: 0.4.0
referencing: 0.37.0
requests: 2.32.5
roman-numerals: 4.1.0
roman-numerals-py: 4.1.0
rpds-py: 0.30.0
scipy: 1.14.0
setuptools: 80.9.0
sfftk-rw: 0.8.1
six: 1.17.0
snowballstemmer: 3.0.1
sortedcontainers: 2.4.0
soupsieve: 2.8.3
Sphinx: 8.2.3
sphinx-autodoc-typehints: 3.2.0
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
sse-starlette: 3.2.0
stack-data: 0.6.3
starlette: 0.52.1
superqt: 0.7.6
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2025.3.13
tinyarray: 1.2.5
tornado: 6.5.4
traitlets: 5.14.3
typing-inspection: 0.4.2
typing_extensions: 4.15.0
urllib3: 2.6.3
uvicorn: 0.40.0
wcwidth: 0.3.2
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.15
yarl: 1.22.0
Change History (2)
comment:1 by , 5 hours ago
| Component: | Unassigned → Window Toolkit |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → assigned |
| Summary: | ChimeraX bug report submission → Crash in QDockWidget::event() in Qt 6.9.2 |
comment:2 by , 4 hours ago
| Resolution: | → duplicate |
|---|---|
| Status: | assigned → closed |
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Qt crash dragging tool window. Believe fixed in Qt 6.10.