id summary reporter owner description type status priority milestone component version resolution keywords cc blockedby blocking notify_on_close platform project 17647 Crash using open/save dialog chimerax-bug-report@… Eric Pettersen "{{{ The following bug report has been submitted: Platform: Windows-10-10.0.26100 ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC) Description Last time you used ChimeraX it crashed. Please describe steps that led to the crash here. Windows fatal exception: code 0xc0000002 Thread 0x00005518 (most recent call first): File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\open_command\dialog.py"", line 135 in show_open_file_dialog File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\providers.py"", line 17 in _file_open File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\providers.py"", line 45 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\__init__.py"", line 37 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\toolshed\__init__.py"", line 1284 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\toolshed\info.py"", line 381 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\tool.py"", line 165 in callback File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\ui\gui.py"", line 301 in event_loop File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py"", line 867 in init File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py"", line 1018 in File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\runpy.py"", line 87 in _run_code File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\runpy.py"", line 197 in _run_module_as_main Windows fatal exception: code 0xc0000002 Thread 0x00005518 (most recent call first): File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\open_command\dialog.py"", line 135 in show_open_file_dialog File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\providers.py"", line 17 in _file_open File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\providers.py"", line 45 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\__init__.py"", line 37 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\toolshed\__init__.py"", line 1284 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\toolshed\info.py"", line 381 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\tool.py"", line 165 in callback File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\ui\gui.py"", line 301 in event_loop File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py"", line 867 in init File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py"", line 1018 in File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\runpy.py"", line 87 in _run_code File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\runpy.py"", line 197 in _run_module_as_main Windows fatal exception: code 0xc0000002 Thread 0x00005518 (most recent call first): File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\open_command\dialog.py"", line 135 in show_open_file_dialog File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\providers.py"", line 17 in _file_open File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\providers.py"", line 45 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\__init__.py"", line 37 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\toolshed\__init__.py"", line 1284 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\toolshed\info.py"", line 381 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\tool.py"", line 165 in callback File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\ui\gui.py"", line 301 in event_loop File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py"", line 867 in init File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py"", line 1018 in File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\runpy.py"", line 87 in _run_code File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\runpy.py"", line 197 in _run_module_as_main Windows fatal exception: code 0xc0000002 Thread 0x00005518 (most recent call first): File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\open_command\dialog.py"", line 135 in show_open_file_dialog File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\providers.py"", line 17 in _file_open File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\providers.py"", line 45 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\__init__.py"", line 37 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\toolshed\__init__.py"", line 1284 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\toolshed\info.py"", line 381 in run_provider File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\toolbar\tool.py"", line 165 in callback File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\ui\gui.py"", line 301 in event_loop File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py"", line 867 in init File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\ChimeraX_main.py"", line 1018 in File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\runpy.py"", line 87 in _run_code File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\runpy.py"", line 197 in _run_module_as_main Windows fatal exception: code 0xc0000002 Thread 0x00005518 (most recent call first): File ""C:\Program Files (x86)\ChimeraX 1.3\bin\lib\site-packages\chimerax\core\updateloop.py"", line 141 in _redraw_timer_callback Windows fatal exception: access violation ===== Log before crash start ===== > open ""C:/Users/L/Downloads/AF-Q05940-F1-model_v4 (1).pdb"" AF-Q05940-F1-model_v4 (1).pdb title: Alphafold monomer V2.0 prediction for synaptic vesicular amine transporter (Q05940) [more info...] Chain information for AF-Q05940-F1-model_v4 (1).pdb #1 --- Chain | Description | UniProt A | synaptic vesicular amine transporter | VMAT2_HUMAN > cartoon style modeHelix tube > set bgColor white > rainbow Alignment identifier is 1/A > color #1 #aaaaff transparency 0 > color #1 #ffaaff transparency 0 > select add /A:328 14 atoms, 15 bonds, 1 residue, 1 model selected > select add /A:327 23 atoms, 23 bonds, 2 residues, 1 model selected > select add /A:329 32 atoms, 31 bonds, 3 residues, 1 model selected > select add /A:333 37 atoms, 35 bonds, 4 residues, 1 model selected > select add /A:334 48 atoms, 46 bonds, 5 residues, 1 model selected > select add /A:336 55 atoms, 53 bonds, 6 residues, 1 model selected > select add /A:338 61 atoms, 58 bonds, 7 residues, 1 model selected > select add /A:337 66 atoms, 62 bonds, 8 residues, 1 model selected > select add /A:339 74 atoms, 69 bonds, 9 residues, 1 model selected > select add /A:342 82 atoms, 76 bonds, 10 residues, 1 model selected > select add /A:341 94 atoms, 88 bonds, 11 residues, 1 model selected > select add /A:340 100 atoms, 93 bonds, 12 residues, 1 model selected > select add /A:344 104 atoms, 96 bonds, 13 residues, 1 model selected > select add /A:343 112 atoms, 103 bonds, 14 residues, 1 model selected > select add /A:345 119 atoms, 109 bonds, 15 residues, 1 model selected > select add /A:347 127 atoms, 116 bonds, 16 residues, 1 model selected > select add /A:346 135 atoms, 123 bonds, 17 residues, 1 model selected > select add /A:349 139 atoms, 126 bonds, 18 residues, 1 model selected > select add /A:348 150 atoms, 137 bonds, 19 residues, 1 model selected > select add /A:350 158 atoms, 144 bonds, 20 residues, 1 model selected > select add /A:351 166 atoms, 151 bonds, 21 residues, 1 model selected > select add /A:352 171 atoms, 155 bonds, 22 residues, 1 model selected > select add /A:353 181 atoms, 165 bonds, 23 residues, 1 model selected > select add /A:354 190 atoms, 173 bonds, 24 residues, 1 model selected > select add /A:355 198 atoms, 180 bonds, 25 residues, 1 model selected > select add /A:356 202 atoms, 183 bonds, 26 residues, 1 model selected > select add /A:357 213 atoms, 193 bonds, 27 residues, 1 model selected > select add /A:358 227 atoms, 208 bonds, 28 residues, 1 model selected > select add /A:360 233 atoms, 213 bonds, 29 residues, 1 model selected > select add /A:359 241 atoms, 220 bonds, 30 residues, 1 model selected > select add /A:361 246 atoms, 224 bonds, 31 residues, 1 model selected > select add /A:362 254 atoms, 231 bonds, 32 residues, 1 model selected > select add /A:363 262 atoms, 238 bonds, 33 residues, 1 model selected > select add /A:365 270 atoms, 245 bonds, 34 residues, 1 model selected > select add /A:364 274 atoms, 248 bonds, 35 residues, 1 model selected > select add /A:366 282 atoms, 255 bonds, 36 residues, 1 model selected > select add /A:367 290 atoms, 262 bonds, 37 residues, 1 model selected > select add /A:368 297 atoms, 268 bonds, 38 residues, 1 model selected > select add /A:371 303 atoms, 273 bonds, 39 residues, 1 model selected > select add /A:370 310 atoms, 279 bonds, 40 residues, 1 model selected > select add /A:369 314 atoms, 282 bonds, 41 residues, 1 model selected > select add /A:372 322 atoms, 289 bonds, 42 residues, 1 model selected > select add /A:373 330 atoms, 296 bonds, 43 residues, 1 model selected > select add /A:374 336 atoms, 301 bonds, 44 residues, 1 model selected > select add /A:375 344 atoms, 308 bonds, 45 residues, 1 model selected > select add /A:376 351 atoms, 315 bonds, 46 residues, 1 model selected > select add /A:377 362 atoms, 326 bonds, 47 residues, 1 model selected > hide sel cartoons > select add /A:335 370 atoms, 333 bonds, 48 residues, 1 model selected > hide sel cartoons > open ""C:\Users\L\Downloads\AF-Q05940-F1-model_v4 (1).pdb"" format pdb AF-Q05940-F1-model_v4 (1).pdb title: Alphafold monomer V2.0 prediction for synaptic vesicular amine transporter (Q05940) [more info...] Chain information for AF-Q05940-F1-model_v4 (1).pdb #2 --- Chain | Description | UniProt A | synaptic vesicular amine transporter | VMAT2_HUMAN > cartoon style modeHelix tube > hide #2 models > select add #1/A:332 377 atoms, 339 bonds, 49 residues, 1 model selected > hide sel cartoons > show #2 models > save C:\Users\L\Desktop\image1.png supersample 3 > hide #2 models > hide #1 models > open C:/Users/L/Downloads/3s22.cif Summary of feedback from opening C:/Users/L/Downloads/3s22.cif --- note | Fetching CCD CL from http://ligand-expo.rcsb.org/reports/C/CL/CL.cif 3s22.cif title: AMP-C BETA-LACTAMASE (PSEUDOMONAS AERUGINOSA) in complex with an inhibitor [more info...] Chain information for 3s22.cif #3 --- Chain | Description | UniProt A | Beta-lactamase | AMPC_PSEAE Non-standard residues in 3s22.cif #3 --- 3S2 — [(2S,3R)-2-formyl-1-{[4-(methylamino)butyl]carbamoyl}pyrrolidin-3-yl]sulfamic acid CL — chloride ion > rainbow #3 > hide #3 cartoons > show #3 cartoons > hide #3 atoms > cartoon style modeHelix tube > save C:\Users\L\Desktop\image2.png supersample 3 > color #3 #ffaaff transparency 0 > select add #3/A:389 382 atoms, 343 bonds, 50 residues, 2 models selected > select add #3/A:387 390 atoms, 350 bonds, 51 residues, 2 models selected > select add #3/A:388 395 atoms, 354 bonds, 52 residues, 2 models selected > select add #3/A:385 401 atoms, 359 bonds, 53 residues, 2 models selected > select add #3/A:386 405 atoms, 362 bonds, 54 residues, 2 models selected > select add #3/A:384 413 atoms, 369 bonds, 55 residues, 2 models selected > select add #3/A:383 421 atoms, 376 bonds, 56 residues, 2 models selected > select add #3/A:382 426 atoms, 380 bonds, 57 residues, 2 models selected > select add #3/A:381 438 atoms, 392 bonds, 58 residues, 2 models selected > select add #3/A:380 443 atoms, 396 bonds, 59 residues, 2 models selected > select subtract #3/A:380 438 atoms, 392 bonds, 58 residues, 2 models selected > select add #3/A:379 446 atoms, 399 bonds, 59 residues, 2 models selected > select add #3/A:380 451 atoms, 403 bonds, 60 residues, 2 models selected > select add #3/A:378 460 atoms, 411 bonds, 61 residues, 2 models selected > select add #3/A:377 467 atoms, 417 bonds, 62 residues, 2 models selected > select add #3/A:376 478 atoms, 427 bonds, 63 residues, 2 models selected > select add #3/A:374 483 atoms, 431 bonds, 64 residues, 2 models selected > select add #3/A:375 492 atoms, 439 bonds, 65 residues, 2 models selected > select add #3/A:373 500 atoms, 446 bonds, 66 residues, 2 models selected > select add #3/A:372 507 atoms, 453 bonds, 67 residues, 2 models selected > select add #3/A:49 515 atoms, 460 bonds, 68 residues, 2 models selected > select add #3/A:47 521 atoms, 465 bonds, 69 residues, 2 models selected > select add #3/A:48 526 atoms, 469 bonds, 70 residues, 2 models selected > select add #3/A:46 534 atoms, 476 bonds, 71 residues, 2 models selected > select add #3/A:45 541 atoms, 482 bonds, 72 residues, 2 models selected > select add #3/A:44 548 atoms, 489 bonds, 73 residues, 2 models selected > select add #3/A:43 557 atoms, 497 bonds, 74 residues, 2 models selected > select add #3/A:42 564 atoms, 503 bonds, 75 residues, 2 models selected > select add #3/A:41 569 atoms, 507 bonds, 76 residues, 2 models selected > select add #3/A:39 577 atoms, 514 bonds, 77 residues, 2 models selected > select add #3/A:40 582 atoms, 518 bonds, 78 residues, 2 models selected > select add #3/A:38 589 atoms, 524 bonds, 79 residues, 2 models selected > select add #3/A:37 597 atoms, 531 bonds, 80 residues, 2 models selected > select add #3/A:36 602 atoms, 535 bonds, 81 residues, 2 models selected > select add #3/A:35 611 atoms, 543 bonds, 82 residues, 2 models selected > select add #3/A:34 619 atoms, 550 bonds, 83 residues, 2 models selected > select add #3/A:33 630 atoms, 560 bonds, 84 residues, 2 models selected > select add #3/A:32 638 atoms, 567 bonds, 85 residues, 2 models selected > select add #3/A:30 645 atoms, 574 bonds, 86 residues, 2 models selected > select add #3/A:31 650 atoms, 578 bonds, 87 residues, 2 models selected > select add #3/A:29 655 atoms, 582 bonds, 88 residues, 2 models selected > hide sel & #3 cartoons > open C:/Users/L/Downloads/3s22.cif 3s22.cif title: AMP-C BETA-LACTAMASE (PSEUDOMONAS AERUGINOSA) in complex with an inhibitor [more info...] Chain information for 3s22.cif #4 --- Chain | Description | UniProt A | Beta-lactamase | AMPC_PSEAE Non-standard residues in 3s22.cif #4 --- 3S2 — [(2S,3R)-2-formyl-1-{[4-(methylamino)butyl]carbamoyl}pyrrolidin-3-yl]sulfamic acid CL — chloride ion > cartoon style modeHelix tube > hide sel & #3 atoms > select #3 3164 atoms, 2848 bonds, 749 residues, 1 model selected > ~select #3 Nothing selected > hide #3-4 atoms Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps, got 2 atomic models, 0 maps. > ui tool show Matchmaker > matchmaker #4 to #3 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 3s22.cif, chain A (#3) with 3s22.cif, chain A (#4), sequence alignment score = 1917.2 RMSD between 361 pruned atom pairs is 0.000 angstroms; (across all 361 pairs: 0.000) > color #4 #aaffff transparency 0 > save C:\Users\L\Desktop\image3.png supersample 3 > hide #3 models > hide #4 models > show #2 models > show #1 models > color #2 #55ffff transparency 0 > color #2 cyan transparency 0 > color #2 #aaffff transparency 0 > save C:\Users\L\Desktop\image4.png supersample 3 > close session > open ""C:\Users\L\Downloads\8xit (1).cif"" format mmcif 8xit (1).cif title: Cryo-EM structure of sheep VMAT2 dimer in an atypical fold [more info...] Chain information for 8xit (1).cif #1 --- Chain | Description A B | OaVMAT2-BRIL > delete bonds > select /B:16-584 3001 atoms, 1175 pseudobonds, 392 residues, 2 models selected > delete /b > cartoon style modeHelix tube > rainbow > select add /A:566 7 atoms, 2 pseudobonds, 1 residue, 2 models selected > select add /A:565 18 atoms, 4 pseudobonds, 2 residues, 2 models selected > select add /A:564 22 atoms, 6 pseudobonds, 3 residues, 2 models selected > select add /A:563 30 atoms, 8 pseudobonds, 4 residues, 2 models selected > select add /A:548 34 atoms, 11 pseudobonds, 5 residues, 2 models selected > hide sel cartoons > select add /A:547 42 atoms, 13 pseudobonds, 6 residues, 2 models selected > hide sel cartoons > select add /A:133 51 atoms, 15 pseudobonds, 7 residues, 2 models selected > select add /A:49 63 atoms, 17 pseudobonds, 8 residues, 2 models selected > hide sel cartoons > select add /A:17 73 atoms, 20 pseudobonds, 9 residues, 2 models selected > select #1 3001 atoms, 1175 pseudobonds, 392 residues, 2 models selected > ~select #1 Nothing selected > select add /A:297 8 atoms, 2 pseudobonds, 1 residue, 2 models selected > select add /A:296 20 atoms, 4 pseudobonds, 2 residues, 2 models selected > select add /A:274 29 atoms, 7 pseudobonds, 3 residues, 2 models selected > select add /A:272 36 atoms, 9 pseudobonds, 4 residues, 2 models selected > select add /A:273 44 atoms, 11 pseudobonds, 5 residues, 2 models selected > hide sel cartoons > select add /A:426 52 atoms, 13 pseudobonds, 6 residues, 2 models selected > select add /A:423 56 atoms, 15 pseudobonds, 7 residues, 2 models selected > select #1 3001 atoms, 1175 pseudobonds, 392 residues, 2 models selected > ~select #1 Nothing selected > select add /A:423 4 atoms, 2 pseudobonds, 1 residue, 2 models selected > select add /A:424 15 atoms, 4 pseudobonds, 2 residues, 2 models selected > select add /A:394 20 atoms, 6 pseudobonds, 3 residues, 2 models selected > hide sel cartoons Alignment identifier is 1/A Drag select of 33 residues, 57 pseudobonds > select > /A:16-49,134-159,161-182,184-214,216-249,252-272,297-314,321-328,330-371,385-394,424-433,454-494,497-519,524-547,567-584 2775 atoms, 1071 pseudobonds, 362 residues, 2 models selected > select #1 3001 atoms, 1175 pseudobonds, 392 residues, 2 models selected > ~select #1 Nothing selected > select /A:297 8 atoms, 2 pseudobonds, 1 residue, 2 models selected > select /A:297-584 1657 atoms, 644 pseudobonds, 215 residues, 2 models selected > hide sel cartoons > select #1 3001 atoms, 1175 pseudobonds, 392 residues, 2 models selected > ~select #1 Nothing selected > save C:\Users\L\Desktop\image5.png supersample 3 > open ""C:\Users\L\Downloads\8xit (1).cif"" format mmcif 8xit (1).cif title: Cryo-EM structure of sheep VMAT2 dimer in an atypical fold [more info...] Chain information for 8xit (1).cif #2 --- Chain | Description A B | OaVMAT2-BRIL > hide #!1 models > delete /b > cartoon style modeHelix tube > rainbow #!2 Alignment identifier is 1 > select #1/A:16-274 #2/A:16-274 2664 atoms, 1360 bonds, 528 pseudobonds, 352 residues, 4 models selected Seqview [ID: 1] region 2 chains [1-295] RMSD: 0.000 > hide sel & #!2 cartoons > select #2 3001 atoms, 3062 bonds, 6 pseudobonds, 392 residues, 2 models selected > ~select #2 Nothing selected > select add #2/A:567 14 atoms, 15 bonds, 1 residue, 1 model selected > select add #2/A:566 21 atoms, 22 bonds, 2 residues, 1 model selected > select add #2/A:565 32 atoms, 33 bonds, 3 residues, 1 model selected > select add #2/A:564 36 atoms, 36 bonds, 4 residues, 1 model selected > select add #2/A:563 44 atoms, 43 bonds, 5 residues, 1 model selected > select add #2/A:548 48 atoms, 46 bonds, 1 pseudobond, 6 residues, 2 models selected > select add #2/A:547 56 atoms, 53 bonds, 1 pseudobond, 7 residues, 2 models selected > hide sel cartoons > select add #2/A:296 68 atoms, 65 bonds, 1 pseudobond, 8 residues, 2 models selected > select add #2/A:297 76 atoms, 72 bonds, 1 pseudobond, 9 residues, 2 models selected > hide sel cartoons > select add #2/A:423 80 atoms, 75 bonds, 1 pseudobond, 10 residues, 2 models selected > hide sel cartoons > select add #2/A:424 91 atoms, 86 bonds, 2 pseudobonds, 11 residues, 2 models selected > hide sel cartoons > save C:\Users\L\Desktop\image6.png supersample 3 > select #2 3001 atoms, 3062 bonds, 6 pseudobonds, 392 residues, 2 models selected > ~select #2 Nothing selected > select #1/A:423-465 #2/A:423-465 392 atoms, 197 bonds, 72 pseudobonds, 48 residues, 4 models selected Seqview [ID: 1] region 2 chains [396-465] RMSD: 0.000 > hide sel & #!2 cartoons > select #2 3001 atoms, 3062 bonds, 6 pseudobonds, 392 residues, 2 models selected > ~select #2 Nothing selected > select > #1/A:16-49,134-159,161-182,184-214,216-249,252-272,297-314,321-328,330-371,385-394,424-433,454-494,497-519,524-547,567-584 > #2/A:16-49,134-159,161-182,184-214,216-249,252-272,297-314,321-328,330-371,385-394,424-433,454-494,497-519,524-547,567-584 5550 atoms, 2821 bonds, 1071 pseudobonds, 724 residues, 3 models selected > select #2 3001 atoms, 3062 bonds, 6 pseudobonds, 392 residues, 2 models selected > ~select #2 Nothing selected > select #1/A:359-360 #2/A:359-360 26 atoms, 12 bonds, 5 pseudobonds, 4 residues, 3 models selected > select #1/A:359-387 #2/A:359-387 282 atoms, 141 bonds, 51 pseudobonds, 34 residues, 4 models selected Seqview [ID: 1] region 2 chains [359-387] RMSD: 0.000 > select #2 3001 atoms, 3062 bonds, 6 pseudobonds, 392 residues, 2 models selected > ~select #2 Nothing selected > select #1/A:360 #2/A:360 10 atoms, 4 bonds, 2 pseudobonds, 2 residues, 3 models selected > select #1/A:360-394 #2/A:360-394 372 atoms, 186 bonds, 69 pseudobonds, 46 residues, 4 models selected Seqview [ID: 1] region 2 chains [360-394] RMSD: 0.000 > hide sel & #!2 cartoons ===== Log before crash end ===== Log: UCSF ChimeraX version: 1.3 (2021-12-08) © 2016-2021 Regents of the University of California. All rights reserved. How to cite UCSF ChimeraX OpenGL version: 3.3.0 NVIDIA 555.97 OpenGL renderer: NVIDIA GeForce GTX 1660 Ti/PCIe/SSE2 OpenGL vendor: NVIDIA Corporation Manufacturer: ASUSTeK COMPUTER INC. Model: ASUS TUF Gaming A15 FA506IU_FA506IU OS: Microsoft Windows 11 家庭中文版 (Build 26100) Memory: 16,556,658,688 MaxProcessMemory: 137,438,953,344 CPU: 16 AMD Ryzen 7 4800H with Radeon Graphics OSLanguage: zh-CN Locale: ('zh_CN', 'cp936') PyQt5 5.15.2, Qt 5.15.2 Installed Packages: alabaster: 0.7.12 appdirs: 1.4.4 Babel: 2.9.1 backcall: 0.2.0 blockdiag: 2.0.1 certifi: 2021.10.8 cftime: 1.5.1.1 charset-normalizer: 2.0.9 ChimeraX-AddCharge: 1.2.2 ChimeraX-AddH: 2.1.11 ChimeraX-AlignmentAlgorithms: 2.0 ChimeraX-AlignmentHdrs: 3.2 ChimeraX-AlignmentMatrices: 2.0 ChimeraX-Alignments: 2.2.3 ChimeraX-AlphaFold: 1.0 ChimeraX-AltlocExplorer: 1.0.1 ChimeraX-AmberInfo: 1.0 ChimeraX-Arrays: 1.0 ChimeraX-Atomic: 1.31 ChimeraX-AtomicLibrary: 4.2 ChimeraX-AtomSearch: 2.0 ChimeraX-AtomSearchLibrary: 1.0 ChimeraX-AxesPlanes: 2.0 ChimeraX-BasicActions: 1.1 ChimeraX-BILD: 1.0 ChimeraX-BlastProtein: 2.0 ChimeraX-BondRot: 2.0 ChimeraX-BugReporter: 1.0 ChimeraX-BuildStructure: 2.6.1 ChimeraX-Bumps: 1.0 ChimeraX-BundleBuilder: 1.1 ChimeraX-ButtonPanel: 1.0 ChimeraX-CageBuilder: 1.0 ChimeraX-CellPack: 1.0 ChimeraX-Centroids: 1.2 ChimeraX-ChemGroup: 2.0 ChimeraX-Clashes: 2.2.2 ChimeraX-ColorActions: 1.0 ChimeraX-ColorGlobe: 1.0 ChimeraX-ColorKey: 1.5 ChimeraX-CommandLine: 1.1.5 ChimeraX-ConnectStructure: 2.0 ChimeraX-Contacts: 1.0 ChimeraX-Core: 1.3 ChimeraX-CoreFormats: 1.1 ChimeraX-coulombic: 1.3.2 ChimeraX-Crosslinks: 1.0 ChimeraX-Crystal: 1.0 ChimeraX-CrystalContacts: 1.0 ChimeraX-DataFormats: 1.2.2 ChimeraX-Dicom: 1.0 ChimeraX-DistMonitor: 1.1.5 ChimeraX-DistUI: 1.0 ChimeraX-Dssp: 2.0 ChimeraX-EMDB-SFF: 1.0 ChimeraX-ExperimentalCommands: 1.0 ChimeraX-FileHistory: 1.0 ChimeraX-FunctionKey: 1.0 ChimeraX-Geometry: 1.1 ChimeraX-gltf: 1.0 ChimeraX-Graphics: 1.1 ChimeraX-Hbonds: 2.1.2 ChimeraX-Help: 1.2 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 ChimeraX-Label: 1.1 ChimeraX-ListInfo: 1.1.1 ChimeraX-Log: 1.1.4 ChimeraX-LookingGlass: 1.1 ChimeraX-Maestro: 1.8.1 ChimeraX-Map: 1.1 ChimeraX-MapData: 2.0 ChimeraX-MapEraser: 1.0 ChimeraX-MapFilter: 2.0 ChimeraX-MapFit: 2.0 ChimeraX-MapSeries: 2.1 ChimeraX-Markers: 1.0 ChimeraX-Mask: 1.0 ChimeraX-MatchMaker: 2.0.4 ChimeraX-MDcrds: 2.6 ChimeraX-MedicalToolbar: 1.0.1 ChimeraX-Meeting: 1.0 ChimeraX-MLP: 1.1 ChimeraX-mmCIF: 2.4 ChimeraX-MMTF: 2.1 ChimeraX-Modeller: 1.2.6 ChimeraX-ModelPanel: 1.2.1 ChimeraX-ModelSeries: 1.0 ChimeraX-Mol2: 2.0 ChimeraX-Morph: 1.0 ChimeraX-MouseModes: 1.1 ChimeraX-Movie: 1.0 ChimeraX-Neuron: 1.0 ChimeraX-Nucleotides: 2.0.2 ChimeraX-OpenCommand: 1.7 ChimeraX-PDB: 2.6.5 ChimeraX-PDBBio: 1.0 ChimeraX-PDBLibrary: 1.0.2 ChimeraX-PDBMatrices: 1.0 ChimeraX-PickBlobs: 1.0 ChimeraX-Positions: 1.0 ChimeraX-PresetMgr: 1.0.1 ChimeraX-PubChem: 2.1 ChimeraX-ReadPbonds: 1.0.1 ChimeraX-Registration: 1.1 ChimeraX-RemoteControl: 1.0 ChimeraX-ResidueFit: 1.0 ChimeraX-RestServer: 1.1 ChimeraX-RNALayout: 1.0 ChimeraX-RotamerLibMgr: 2.0.1 ChimeraX-RotamerLibsDunbrack: 2.0 ChimeraX-RotamerLibsDynameomics: 2.0 ChimeraX-RotamerLibsRichardson: 2.0 ChimeraX-SaveCommand: 1.5 ChimeraX-SchemeMgr: 1.0 ChimeraX-SDF: 2.0 ChimeraX-Segger: 1.0 ChimeraX-Segment: 1.0 ChimeraX-SelInspector: 1.0 ChimeraX-SeqView: 2.4.6 ChimeraX-Shape: 1.0.1 ChimeraX-Shell: 1.0 ChimeraX-Shortcuts: 1.1 ChimeraX-ShowAttr: 1.0 ChimeraX-ShowSequences: 1.0 ChimeraX-SideView: 1.0 ChimeraX-Smiles: 2.1 ChimeraX-SmoothLines: 1.0 ChimeraX-SpaceNavigator: 1.0 ChimeraX-StdCommands: 1.6.1 ChimeraX-STL: 1.0 ChimeraX-Storm: 1.0 ChimeraX-Struts: 1.0 ChimeraX-Surface: 1.0 ChimeraX-SwapAA: 2.0 ChimeraX-SwapRes: 2.1 ChimeraX-TapeMeasure: 1.0 ChimeraX-Test: 1.0 ChimeraX-Toolbar: 1.1 ChimeraX-ToolshedUtils: 1.2 ChimeraX-Tug: 1.0 ChimeraX-UI: 1.13.7 ChimeraX-uniprot: 2.2 ChimeraX-UnitCell: 1.0 ChimeraX-ViewDockX: 1.0.1 ChimeraX-VIPERdb: 1.0 ChimeraX-Vive: 1.1 ChimeraX-VolumeMenu: 1.0 ChimeraX-VTK: 1.0 ChimeraX-WavefrontOBJ: 1.0 ChimeraX-WebCam: 1.0 ChimeraX-WebServices: 1.0 ChimeraX-Zone: 1.0 colorama: 0.4.4 comtypes: 1.1.10 cxservices: 1.1 cycler: 0.11.0 Cython: 0.29.24 decorator: 5.1.0 docutils: 0.17.1 filelock: 3.0.12 funcparserlib: 0.3.6 grako: 3.16.5 h5py: 3.6.0 html2text: 2020.1.16 idna: 3.3 ihm: 0.21 imagecodecs: 2021.4.28 imagesize: 1.3.0 ipykernel: 5.5.5 ipython: 7.23.1 ipython-genutils: 0.2.0 jedi: 0.18.0 Jinja2: 3.0.1 jupyter-client: 6.1.12 jupyter-core: 4.9.1 kiwisolver: 1.3.2 lxml: 4.6.3 lz4: 3.1.3 MarkupSafe: 2.0.1 matplotlib: 3.4.3 matplotlib-inline: 0.1.3 msgpack: 1.0.2 netCDF4: 1.5.7 networkx: 2.6.3 numexpr: 2.8.0 numpy: 1.21.2 openvr: 1.16.801 packaging: 21.3 ParmEd: 3.2.0 parso: 0.8.3 pickleshare: 0.7.5 Pillow: 8.3.2 pip: 21.2.4 pkginfo: 1.7.1 prompt-toolkit: 3.0.23 psutil: 5.8.0 pycollada: 0.7.1 pydicom: 2.1.2 Pygments: 2.10.0 PyOpenGL: 3.1.5 PyOpenGL-accelerate: 3.1.5 pyparsing: 3.0.6 PyQt5-commercial: 5.15.2 PyQt5-sip: 12.8.1 PyQtWebEngine-commercial: 5.15.2 python-dateutil: 2.8.2 pytz: 2021.3 pywin32: 228 pyzmq: 22.3.0 qtconsole: 5.1.1 QtPy: 1.11.3 RandomWords: 0.3.0 requests: 2.26.0 scipy: 1.7.1 setuptools: 57.5.0 sfftk-rw: 0.7.1 six: 1.16.0 snowballstemmer: 2.2.0 sortedcontainers: 2.4.0 Sphinx: 4.2.0 sphinx-autodoc-typehints: 1.12.0 sphinxcontrib-applehelp: 1.0.2 sphinxcontrib-blockdiag: 2.0.0 sphinxcontrib-devhelp: 1.0.2 sphinxcontrib-htmlhelp: 2.0.0 sphinxcontrib-jsmath: 1.0.1 sphinxcontrib-qthelp: 1.0.3 sphinxcontrib-serializinghtml: 1.1.5 suds-jurko: 0.6 tables: 3.6.1 tifffile: 2021.4.8 tinyarray: 1.2.3 tornado: 6.1 traitlets: 5.1.1 urllib3: 1.26.7 wcwidth: 0.2.5 webcolors: 1.11.1 wheel: 0.37.0 wheel-filename: 1.3.0 WMI: 1.5.1 }}} " defect accepted normal UI Tom Goddard all ChimeraX