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Opened 2 months ago
Closed 2 months ago
#18681 closed defect (can't reproduce)
Crash in event loop
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Core | Version: | |
| Keywords: | Cc: | Tom Goddard | |
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Windows-10-10.0.19045
ChimeraX Version: 1.11.dev202508300055 (2025-08-30 00:55:12 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Windows fatal exception: access violation
Thread 0x000029ec (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 579 in _handle_results
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00002994 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 531 in _handle_tasks
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000037a8 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\connection.py", line 828 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\connection.py", line 896 in wait
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 502 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 522 in _handle_workers
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00004ae8 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000044b8 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00004b78 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00003efc (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000039f4 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00003f38 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00004b08 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x0000370c (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00002204 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00002690 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00003668 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x0000428c (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000039d0 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 579 in _handle_results
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00004330 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 531 in _handle_tasks
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00004864 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\connection.py", line 828 in _exhaustive_wait
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\connection.py", line 896 in wait
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 502 in _wait_for_updates
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 522 in _handle_workers
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00000a4c (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x0000448c (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00000acc (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00003c48 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x0000091c (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00002c18 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00004480 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000031fc (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00004b48 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x000017a8 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00000128 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Thread 0x00004bf0 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\multiprocessing\pool.py", line 114 in worker
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 982 in run
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1045 in _bootstrap_inner
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\threading.py", line 1002 in _bootstrap
Current thread 0x00001f24 (most recent call first):
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\site-packages\chimerax\ui\gui.py", line 368 in event_loop
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\site-packages\chimerax\core\__main__.py", line 1064 in init
File "C:\Program Files\ChimeraX 1.11.dev202508300055\bin\Lib\site-packages\chimerax\core\__main__.py", line 1229 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
===== Log before crash start =====
UCSF ChimeraX version: 1.11.dev202508300055 (2025-08-30)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "I:\Chimera\AF Presentation\AF-Q9HBA0-F1-model_v4.pdb" format pdb
AF-Q9HBA0-F1-model_v4.pdb title:
Alphafold monomer V2.0 prediction for transient receptor potential cation
channel subfamily V member 4 (Q9HBA0) [more info...]
Chain information for AF-Q9HBA0-F1-model_v4.pdb #1
---
Chain | Description | UniProt
A | transient receptor potential cation channel subfamily V member 4 | TRPV4_HUMAN 1-871
Computing secondary structure
> close
> open "I:\Chimera\AF
> Presentation\F-Bars\meg_multi\fold_meg_multi_model_1.cif" format mmcif
Chain information for fold_meg_multi_model_1.cif #1
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\meg_multi\fold_meg_multi_model_0.cif" format mmcif
Chain information for fold_meg_multi_model_0.cif #2
---
Chain | Description
A B C D | .
Computing secondary structure
> open pdb:3M3W format mmcif fromDatabase pdb
3m3w title:
Crystal structure of mouse PACSIN3 BAR domain mutant [more info...]
Chain information for 3m3w #3
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-320
4550 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> open pdb:3SYV format mmcif fromDatabase pdb
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #4
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> open pdb:3QE6 format mmcif fromDatabase pdb
3qe6 title:
Mouse PACSIN 3 F-BAR domain structure [more info...]
Chain information for 3qe6 #5
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 4-307
Non-standard residues in 3qe6 #5
---
MG — magnesium ion
4631 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> open "I:\Chimera\AF
> Presentation\F-Bars\iao_multi_1\fold_iao_multi_1_model_1.cif" format mmcif
Chain information for fold_iao_multi_1_model_1.cif #6
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iao_multi_1\fold_iao_multi_1_model_2.cif" format mmcif
Chain information for fold_iao_multi_1_model_2.cif #7
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iao_multi_1\fold_iao_multi_1_model_2.cif" format mmcif
Chain information for fold_iao_multi_1_model_2.cif #8
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iao_multi_1\fold_iao_multi_1_model_2.cif" format mmcif
Chain information for fold_iao_multi_1_model_2.cif #9
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iao_multi_1\fold_iao_multi_1_model_3.cif" format mmcif
Chain information for fold_iao_multi_1_model_3.cif #10
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iao_multi_1\fold_iao_multi_1_model_3.cif" format mmcif
Chain information for fold_iao_multi_1_model_3.cif #11
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iao_multi_1\fold_iao_multi_1_model_4.cif" format mmcif
Chain information for fold_iao_multi_1_model_4.cif #12
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iao_multi_1\fold_iao_multi_1_model_0.cif" format mmcif
Chain information for fold_iao_multi_1_model_0.cif #13
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\iar\fold_iar_model_2.cif" format
> mmcif
Chain information for fold_iar_model_2.cif #14
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\iar\fold_iar_model_2.cif" format
> mmcif
Chain information for fold_iar_model_2.cif #15
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\iar\fold_iar_model_3.cif" format
> mmcif
Chain information for fold_iar_model_3.cif #16
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\iar\fold_iar_model_4.cif" format
> mmcif
Chain information for fold_iar_model_4.cif #17
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\iar\fold_iar_model_4.cif" format
> mmcif
Chain information for fold_iar_model_4.cif #18
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\iar\fold_iar_model_0.cif" format
> mmcif
Chain information for fold_iar_model_0.cif #19
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\iar\fold_iar_model_1.cif" format
> mmcif
Chain information for fold_iar_model_1.cif #20
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iar_multi\fold_iar_multi_model_2.cif" format mmcif
Chain information for fold_iar_multi_model_2.cif #21
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iar_multi\fold_iar_multi_model_3.cif" format mmcif
Chain information for fold_iar_multi_model_3.cif #22
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iar_multi\fold_iar_multi_model_4.cif" format mmcif
Chain information for fold_iar_multi_model_4.cif #23
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iar_multi\fold_iar_multi_model_0.cif" format mmcif
Chain information for fold_iar_multi_model_0.cif #24
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\iar_multi\fold_iar_multi_model_1.cif" format mmcif
Chain information for fold_iar_multi_model_1.cif #25
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\ima\fold_ima_model_2.cif" format
> mmcif
Chain information for fold_ima_model_2.cif #26
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\ima\fold_ima_model_3.cif" format
> mmcif
Chain information for fold_ima_model_3.cif #27
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\ima\fold_ima_model_4.cif" format
> mmcif
Chain information for fold_ima_model_4.cif #28
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\ima\fold_ima_model_0.cif" format
> mmcif
Chain information for fold_ima_model_0.cif #29
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\ima\fold_ima_model_1.cif" format
> mmcif
Chain information for fold_ima_model_1.cif #30
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\ima_multi\fold_ima_multi_model_2.cif" format mmcif
Chain information for fold_ima_multi_model_2.cif #31
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\ima_multi\fold_ima_multi_model_3.cif" format mmcif
Chain information for fold_ima_multi_model_3.cif #32
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\ima_multi\fold_ima_multi_model_4.cif" format mmcif
Chain information for fold_ima_multi_model_4.cif #33
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\ima_multi\fold_ima_multi_model_0.cif" format mmcif
Chain information for fold_ima_multi_model_0.cif #34
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\ima_multi\fold_ima_multi_model_1.cif" format mmcif
Chain information for fold_ima_multi_model_1.cif #35
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\meg\fold_meg_model_1.cif" format
> mmcif
Chain information for fold_meg_model_1.cif #36
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\meg\fold_meg_model_1.cif" format
> mmcif
Chain information for fold_meg_model_1.cif #37
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\meg\fold_meg_model_3.cif" format
> mmcif
Chain information for fold_meg_model_3.cif #38
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\meg\fold_meg_model_4.cif" format
> mmcif
Chain information for fold_meg_model_4.cif #39
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF Presentation\F-Bars\meg\fold_meg_model_0.cif" format
> mmcif
Chain information for fold_meg_model_0.cif #40
---
Chain | Description
A | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\meg_multi\fold_meg_multi_model_1.cif" format mmcif
Chain information for fold_meg_multi_model_1.cif #41
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\meg_multi\fold_meg_multi_model_2.cif" format mmcif
Chain information for fold_meg_multi_model_2.cif #42
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\meg_multi\fold_meg_multi_model_3.cif" format mmcif
Chain information for fold_meg_multi_model_3.cif #43
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\meg_multi\fold_meg_multi_model_4.cif" format mmcif
Chain information for fold_meg_multi_model_4.cif #44
---
Chain | Description
A B C D | .
Computing secondary structure
> open "I:\Chimera\AF
> Presentation\F-Bars\meg_multi\fold_meg_multi_model_0.cif" format mmcif
Chain information for fold_meg_multi_model_0.cif #45
---
Chain | Description
A B C D | .
Computing secondary structure
> close #8-9
> close #11,14,17
> hide target m
> show #!3 models
> show #!4 models
> show #!5 models
> hide #!5 models
> hide #!4 models
> hide #!3 models
> open "I:\Chimera\AF Presentation\ChimeraX chTRPV4.cxs" format session
> view name session-start
opened ChimeraX session
> view #!6.2.2 @ close #1,7,9,11,13-26#2-6,8,10,12
> open pdb:3QE6 format mmcif fromDatabase pdb
3qe6 title:
Mouse PACSIN 3 F-BAR domain structure [more info...]
Chain information for 3qe6 #1
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 4-307
Non-standard residues in 3qe6 #1
---
MG — magnesium ion
4631 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> open pdb:3SYV format mmcif fromDatabase pdb
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #2
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> open pdb:3M3W format mmcif fromDatabase pdb
3m3w title:
Crystal structure of mouse PACSIN3 BAR domain mutant [more info...]
Chain information for 3m3w #3
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-320
4550 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> ui tool show "Blast Protein"
> hide #!1 models
> show #!1 models
> ui windowfill toggle
> blastprotein #1/A database pdb cutoff 1e-3 matrix BLOSUM62 maxSeqs 100
> version None name bp1
Webservices job id: 6Z53J9MPKSJJM31V
Webservices job finished: 6Z53J9MPKSJJM31V
> hide #!3 models
> show #!3 models
> hide #!3 models
> show #!3 models
> select add #3
4560 atoms, 4651 bonds, 3 pseudobonds, 576 residues, 3 models selected
> hide #!2 models
> hide #!1 models
> hide #!3 models
> select subtract #3
Nothing selected
> open pdb:3M3W
3m3w title:
Crystal structure of mouse PACSIN3 BAR domain mutant [more info...]
Chain information for 3m3w #4
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-320
4550 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> matchmaker #4/A to #1/A
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 3qe6, chain A (#1) with 3M3W_A, chain A (#4), sequence alignment
score = 1551.1
RMSD between 242 pruned atom pairs is 0.630 angstroms; (across all 274 pairs:
1.514)
> show #!3 models
> hide #!3 models
> show #!3 models
> open pdb:3M3W
3m3w title:
Crystal structure of mouse PACSIN3 BAR domain mutant [more info...]
Chain information for 3m3w #5
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-320
4550 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> matchmaker #5/B to #1/A
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 3qe6, chain A (#1) with 3M3W_B, chain B (#5), sequence alignment
score = 1518.7
RMSD between 234 pruned atom pairs is 0.829 angstroms; (across all 279 pairs:
1.943)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #6
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #6/A to #1/A
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 3qe6, chain A (#1) with 3SYV_A, chain A (#6), sequence alignment
score = 1508.3
RMSD between 216 pruned atom pairs is 0.746 angstroms; (across all 249 pairs:
1.942)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #7
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #7/B to #1/A
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 3qe6, chain A (#1) with 3SYV_B, chain B (#7), sequence alignment
score = 1494.5
RMSD between 232 pruned atom pairs is 0.854 angstroms; (across all 257 pairs:
1.776)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #8
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #8/C to #1/A
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 3qe6, chain A (#1) with 3SYV_C, chain C (#8), sequence alignment
score = 1512.5
RMSD between 214 pruned atom pairs is 0.769 angstroms; (across all 251 pairs:
1.908)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #9
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #9/D to #1/A
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 3qe6, chain A (#1) with 3SYV_D, chain D (#9), sequence alignment
score = 1520.3
RMSD between 230 pruned atom pairs is 0.856 angstroms; (across all 255 pairs:
3.680)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #10
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #10/E to #1/A
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 3qe6, chain A (#1) with 3SYV_E, chain E (#10), sequence alignment
score = 1487.3
RMSD between 220 pruned atom pairs is 0.771 angstroms; (across all 254 pairs:
1.971)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #11
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #11/F to #1/A
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 3qe6, chain A (#1) with 3SYV_F, chain F (#11), sequence alignment
score = 1496.3
RMSD between 233 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
1.561)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #12
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #12/G to #1/A
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 3qe6, chain A (#1) with 3SYV_G, chain G (#12), sequence alignment
score = 1496.3
RMSD between 212 pruned atom pairs is 0.761 angstroms; (across all 246 pairs:
1.718)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #13
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #13/H to #1/A
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 3qe6, chain A (#1) with 3SYV_H, chain H (#13), sequence alignment
score = 1506.5
RMSD between 230 pruned atom pairs is 0.833 angstroms; (across all 247 pairs:
1.234)
> show #!2 models
> show #!1 models
> show cartoons
> hide (protein|nucleic) target a
> cartoon hide
> show backbone target ab
> select add #4
4560 atoms, 4651 bonds, 3 pseudobonds, 576 residues, 3 models selected
> select add #5
9120 atoms, 9302 bonds, 6 pseudobonds, 1152 residues, 6 models selected
> select add #6
25590 atoms, 26028 bonds, 22 pseudobonds, 3291 residues, 8 models selected
> select add #8
42060 atoms, 42754 bonds, 38 pseudobonds, 5430 residues, 10 models selected
> select add #7
58530 atoms, 59480 bonds, 54 pseudobonds, 7569 residues, 12 models selected
> select add #9
75000 atoms, 76206 bonds, 70 pseudobonds, 9708 residues, 14 models selected
> select add #10
91470 atoms, 92932 bonds, 86 pseudobonds, 11847 residues, 16 models selected
> select add #12
107940 atoms, 109658 bonds, 102 pseudobonds, 13986 residues, 18 models
selected
> select add #13
124410 atoms, 126384 bonds, 118 pseudobonds, 16125 residues, 20 models
selected
> select add #11
140880 atoms, 143110 bonds, 134 pseudobonds, 18264 residues, 22 models
selected
> show sel cartoons
> hide sel atoms
> show sel cartoons
> select add #3
145440 atoms, 147761 bonds, 137 pseudobonds, 18840 residues, 25 models
selected
> select add #2
161910 atoms, 164487 bonds, 153 pseudobonds, 20979 residues, 27 models
selected
> select add #1
166545 atoms, 169195 bonds, 164 pseudobonds, 21584 residues, 31 models
selected
> show sel cartoons
> style sel stick
Changed 166545 atom styles
> hide sel atoms
> color sel bychain
> color sel byhetero
> color sel bychain
> save "I:/Chimera/AF Presentation/F-Bars/align bai x-ray.cxs"
> ui tool show Matchmaker
> matchmaker #!2-13 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 3qe6, chain B (#1) with 3syv, chain D (#2), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
Matchmaker 3qe6, chain B (#1) with 3m3w, chain A (#3), sequence alignment
score = 1569.7
RMSD between 241 pruned atom pairs is 0.763 angstroms; (across all 275 pairs:
1.830)
Matchmaker 3qe6, chain B (#1) with 3M3W_A, chain A (#4), sequence alignment
score = 1569.7
RMSD between 241 pruned atom pairs is 0.763 angstroms; (across all 275 pairs:
1.830)
Matchmaker 3qe6, chain B (#1) with 3M3W_B, chain A (#5), sequence alignment
score = 1569.7
RMSD between 241 pruned atom pairs is 0.763 angstroms; (across all 275 pairs:
1.830)
Matchmaker 3qe6, chain B (#1) with 3SYV_A, chain D (#6), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
Matchmaker 3qe6, chain B (#1) with 3SYV_B, chain D (#7), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
Matchmaker 3qe6, chain B (#1) with 3SYV_C, chain D (#8), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
Matchmaker 3qe6, chain B (#1) with 3SYV_D, chain D (#9), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
Matchmaker 3qe6, chain B (#1) with 3SYV_E, chain D (#10), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
Matchmaker 3qe6, chain B (#1) with 3SYV_F, chain D (#11), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
Matchmaker 3qe6, chain B (#1) with 3SYV_G, chain D (#12), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
Matchmaker 3qe6, chain B (#1) with 3SYV_H, chain D (#13), sequence alignment
score = 1551.5
RMSD between 215 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
3.890)
> ui tool show AlphaFold
> select subtract #2
150075 atoms, 152469 bonds, 148 pseudobonds, 19445 residues, 29 models
selected
> select subtract #3
145515 atoms, 147818 bonds, 145 pseudobonds, 18869 residues, 26 models
selected
> select subtract #4
140955 atoms, 143167 bonds, 142 pseudobonds, 18293 residues, 23 models
selected
> select subtract #5
136395 atoms, 138516 bonds, 139 pseudobonds, 17717 residues, 20 models
selected
> select subtract #6
119925 atoms, 121790 bonds, 123 pseudobonds, 15578 residues, 18 models
selected
> select subtract #7
103455 atoms, 105064 bonds, 107 pseudobonds, 13439 residues, 16 models
selected
> select subtract #8
86985 atoms, 88338 bonds, 91 pseudobonds, 11300 residues, 14 models selected
> select subtract #9
70515 atoms, 71612 bonds, 75 pseudobonds, 9161 residues, 12 models selected
> select subtract #10
54045 atoms, 54886 bonds, 59 pseudobonds, 7022 residues, 10 models selected
> select subtract #11
37575 atoms, 38160 bonds, 43 pseudobonds, 4883 residues, 8 models selected
> select subtract #12
21105 atoms, 21434 bonds, 27 pseudobonds, 2744 residues, 6 models selected
> select subtract #13
4635 atoms, 4708 bonds, 11 pseudobonds, 605 residues, 4 models selected
> alphafold match #1/A
Fetching compressed AlphaFold Q99JB8 from
https://alphafold.ebi.ac.uk/files/AF-Q99JB8-F1-model_v3.cif
1 AlphaFold model found using UniProt identifier: Q99JB8 (chain A)
AlphaFold prediction matching 3qe6
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
A | Q99JB8 | PACN3_MOUSE | 1.83 | 304 | 283 | 100
Opened 1 AlphaFold model
> select add #14
7141 atoms, 7272 bonds, 11 pseudobonds, 909 residues, 6 models selected
> hide target m
> show #!14 models
> show #!1 models
> show #14.1 models
> hide #!14 models
> show #!14 models
> hide #!14 models
> show #!14 models
> alphafold match #1/B
1 AlphaFold model found using UniProt identifier: Q99JB8 (chain B)
AlphaFold prediction matching 3qe6
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
B | Q99JB8 | PACN3_MOUSE | 2.17 | 304 | 286 | 100
Opened 1 AlphaFold model
> select subtract #1
2506 atoms, 2564 bonds, 304 residues, 2 models selected
> hide #!1 models
> show #!2 models
> hide #!14 models
> select subtract #14
Nothing selected
> hide #14.1 models
> hide #!15 models
> hide #15.1 models
> select add #2
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> alphafold match #2
1 AlphaFold model found using UniProt identifier: Q99JB8 (chains
A,B,C,D,E,F,G,H)
AlphaFold prediction matching 3syv
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
A | Q99JB8 | PACN3_MOUSE | 1.92 | 341 | 250 | 100
B | Q99JB8 | PACN3_MOUSE | 1.56 | 341 | 257 | 100
C | Q99JB8 | PACN3_MOUSE | 4.23 | 341 | 257 | 100
D | Q99JB8 | PACN3_MOUSE | 3.55 | 341 | 255 | 100
E | Q99JB8 | PACN3_MOUSE | 1.87 | 341 | 255 | 100
F | Q99JB8 | PACN3_MOUSE | 1.56 | 341 | 255 | 100
G | Q99JB8 | PACN3_MOUSE | 4.94 | 341 | 254 | 100
H | Q99JB8 | PACN3_MOUSE | 1.30 | 341 | 247 | 100
Opened 8 AlphaFold models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> select subtract #2
Nothing selected
> show #!3 models
> hide #!16 models
> show #!14 models
> show #14.1 models
> hide #14.1 models
> show #15.1 models
> hide #15.1 models
> show #15.1 models
> hide #15.1 models
> hide #!15 models
> hide #!14 models
> hide #!3 models
> select add #3
4560 atoms, 4651 bonds, 3 pseudobonds, 576 residues, 3 models selected
> show #!3 models
> alphafold match #2
1 AlphaFold model found using UniProt identifier: Q99JB8 (chains
A,B,C,D,E,F,G,H)
AlphaFold prediction matching 3syv
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
A | Q99JB8 | PACN3_MOUSE | 1.92 | 341 | 250 | 100
B | Q99JB8 | PACN3_MOUSE | 1.56 | 341 | 257 | 100
C | Q99JB8 | PACN3_MOUSE | 4.23 | 341 | 257 | 100
D | Q99JB8 | PACN3_MOUSE | 3.55 | 341 | 255 | 100
E | Q99JB8 | PACN3_MOUSE | 1.87 | 341 | 255 | 100
F | Q99JB8 | PACN3_MOUSE | 1.56 | 341 | 255 | 100
G | Q99JB8 | PACN3_MOUSE | 4.94 | 341 | 254 | 100
H | Q99JB8 | PACN3_MOUSE | 1.30 | 341 | 247 | 100
Opened 8 AlphaFold models
> close #17
> blastprotein #1/A database pdb cutoff 1e-3 matrix BLOSUM62 maxSeqs 100
> version None name bp2
Webservices job id: J4RGKBEVUQ2N1QST
Webservices job finished: J4RGKBEVUQ2N1QST
QWindowsWindow::setGeometry: Unable to set geometry 3439x1441+0+25 (frame:
3455x1482-8-8) on QWidgetWindow/"MainWindowClassWindow" on "MSI MPG343CQR".
Resulting geometry: 3440x1372+0+25 (frame: 3456x1413-8-8) margins: 8, 33, 8, 8
minimum size: 601x1305 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0,
y=0), maxtrack=POINT(x=0, y=0), mintrack=POINT(x=680, y=1482)))
> undo
Undo failed, probably because structures have been modified.
> undo
Undo failed, probably because structures have been modified.
> alphafold match #3
1 AlphaFold model found using UniProt identifier: Q99JB8 (chains A,B)
AlphaFold prediction matching 3m3w
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
A | Q99JB8 | PACN3_MOUSE | 1.26 | 320 | 280 | 100
B | Q99JB8 | PACN3_MOUSE | 1.61 | 320 | 286 | 100
Opened 2 AlphaFold models
> alphafold match #3
1 AlphaFold model found using UniProt identifier: Q99JB8 (chains A,B)
AlphaFold prediction matching 3m3w
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
A | Q99JB8 | PACN3_MOUSE | 1.26 | 320 | 280 | 100
B | Q99JB8 | PACN3_MOUSE | 1.61 | 320 | 286 | 100
Opened 2 AlphaFold models
> hide #!18 models
> hide #!17 models
> show #!17 models
> hide #!17 models
> show #!18 models
> hide #!18 models
> close #18
> show #!17 models
> matchmaker #17.1-2#!4-5 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 3m3w, chain A (#3) with AlphaFold PACN3_MOUSE chain A, chain A
(#17.1), sequence alignment score = 1597.6
RMSD between 257 pruned atom pairs is 0.792 angstroms; (across all 280 pairs:
1.262)
Matchmaker 3m3w, chain A (#3) with AlphaFold PACN3_MOUSE chain B, chain B
(#17.2), sequence alignment score = 1597.6
RMSD between 257 pruned atom pairs is 0.792 angstroms; (across all 280 pairs:
1.262)
Matchmaker 3m3w, chain A (#3) with 3M3W_A, chain A (#4), sequence alignment
score = 1663.5
RMSD between 280 pruned atom pairs is 0.000 angstroms; (across all 280 pairs:
0.000)
Matchmaker 3m3w, chain A (#3) with 3M3W_B, chain A (#5), sequence alignment
score = 1663.5
RMSD between 280 pruned atom pairs is 0.000 angstroms; (across all 280 pairs:
0.000)
> show #!5 models
> show #!4 models
> hide #!3 models
> show #!3 models
> hide #!4 models
> show #!4 models
> select subtract #3
Nothing selected
> hide #!4 models
> show #!4 models
> select add #4
4560 atoms, 4651 bonds, 3 pseudobonds, 576 residues, 3 models selected
> hide #!4 models
> show #!4 models
> select subtract #4
Nothing selected
> select add #5
4560 atoms, 4651 bonds, 3 pseudobonds, 576 residues, 3 models selected
> select subtract #5
Nothing selected
> select add #17
5260 atoms, 5378 bonds, 640 residues, 3 models selected
> select subtract #17
Nothing selected
> hide #!17 models
> matchmaker #16.1-8#!6-13 to #2
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 3syv, chain D (#2) with AlphaFold PACN3_MOUSE chain A, chain A
(#16.1), sequence alignment score = 1667.7
RMSD between 224 pruned atom pairs is 0.996 angstroms; (across all 255 pairs:
3.551)
Matchmaker 3syv, chain D (#2) with AlphaFold PACN3_MOUSE chain B, chain B
(#16.2), sequence alignment score = 1667.7
RMSD between 224 pruned atom pairs is 0.996 angstroms; (across all 255 pairs:
3.551)
Matchmaker 3syv, chain D (#2) with AlphaFold PACN3_MOUSE chain C, chain C
(#16.3), sequence alignment score = 1667.7
RMSD between 224 pruned atom pairs is 0.996 angstroms; (across all 255 pairs:
3.551)
Matchmaker 3syv, chain D (#2) with AlphaFold PACN3_MOUSE chain D, chain D
(#16.4), sequence alignment score = 1667.7
RMSD between 224 pruned atom pairs is 0.996 angstroms; (across all 255 pairs:
3.551)
Matchmaker 3syv, chain D (#2) with AlphaFold PACN3_MOUSE chain E, chain E
(#16.5), sequence alignment score = 1667.7
RMSD between 224 pruned atom pairs is 0.996 angstroms; (across all 255 pairs:
3.551)
Matchmaker 3syv, chain D (#2) with AlphaFold PACN3_MOUSE chain F, chain F
(#16.6), sequence alignment score = 1667.7
RMSD between 224 pruned atom pairs is 0.996 angstroms; (across all 255 pairs:
3.551)
Matchmaker 3syv, chain D (#2) with AlphaFold PACN3_MOUSE chain G, chain G
(#16.7), sequence alignment score = 1667.7
RMSD between 224 pruned atom pairs is 0.996 angstroms; (across all 255 pairs:
3.551)
Matchmaker 3syv, chain D (#2) with AlphaFold PACN3_MOUSE chain H, chain H
(#16.8), sequence alignment score = 1667.7
RMSD between 224 pruned atom pairs is 0.996 angstroms; (across all 255 pairs:
3.551)
Matchmaker 3syv, chain D (#2) with 3SYV_A, chain D (#6), sequence alignment
score = 1734.3
RMSD between 255 pruned atom pairs is 0.000 angstroms; (across all 255 pairs:
0.000)
Matchmaker 3syv, chain D (#2) with 3SYV_B, chain D (#7), sequence alignment
score = 1734.3
RMSD between 255 pruned atom pairs is 0.000 angstroms; (across all 255 pairs:
0.000)
Matchmaker 3syv, chain D (#2) with 3SYV_C, chain D (#8), sequence alignment
score = 1734.3
RMSD between 255 pruned atom pairs is 0.000 angstroms; (across all 255 pairs:
0.000)
Matchmaker 3syv, chain D (#2) with 3SYV_D, chain D (#9), sequence alignment
score = 1734.3
RMSD between 255 pruned atom pairs is 0.000 angstroms; (across all 255 pairs:
0.000)
Matchmaker 3syv, chain D (#2) with 3SYV_E, chain D (#10), sequence alignment
score = 1734.3
RMSD between 255 pruned atom pairs is 0.000 angstroms; (across all 255 pairs:
0.000)
Matchmaker 3syv, chain D (#2) with 3SYV_F, chain D (#11), sequence alignment
score = 1734.3
RMSD between 255 pruned atom pairs is 0.000 angstroms; (across all 255 pairs:
0.000)
Matchmaker 3syv, chain D (#2) with 3SYV_G, chain D (#12), sequence alignment
score = 1734.3
RMSD between 255 pruned atom pairs is 0.000 angstroms; (across all 255 pairs:
0.000)
Matchmaker 3syv, chain D (#2) with 3SYV_H, chain D (#13), sequence alignment
score = 1734.3
RMSD between 255 pruned atom pairs is 0.000 angstroms; (across all 255 pairs:
0.000)
> hide #!4 models
> hide #!5 models
> hide #!3 models
> show #!2 models
> show #!6 models
> hide #!6 models
> select add #6
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> show #!6 models
> select subtract #6
Nothing selected
> select add #7
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> show #!7 models
> hide #!7 models
> select add #8
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> show #!8 models
> hide #!8 models
> select add #13
49410 atoms, 50178 bonds, 48 pseudobonds, 6417 residues, 6 models selected
> show #!13 models
> select subtract #8
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> select subtract #7
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> show #!7 models
> show #!8 models
> show #!9 models
> show #!10 models
> show #!11 models
> show #!12 models
> select subtract #13
Nothing selected
> select add #13
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select subtract #13
Nothing selected
> select add #12
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select subtract #12
Nothing selected
> show #!16 models
> hide #16.8 models
> show #16.8 models
> select add #16.8
2782 atoms, 2845 bonds, 341 residues, 1 model selected
> select add #16.7
5564 atoms, 5690 bonds, 682 residues, 2 models selected
> select add #16.6
8346 atoms, 8535 bonds, 1023 residues, 3 models selected
> select add #16.5
11128 atoms, 11380 bonds, 1364 residues, 4 models selected
> select add #16.4
13910 atoms, 14225 bonds, 1705 residues, 5 models selected
> select add #16.3
16692 atoms, 17070 bonds, 2046 residues, 6 models selected
> select add #16.2
19474 atoms, 19915 bonds, 2387 residues, 7 models selected
> select add #16.1
22256 atoms, 22760 bonds, 2728 residues, 8 models selected
> hide #!16 models
> show #!16 models
> close #16
> alphafold match #2
1 AlphaFold model found using UniProt identifier: Q99JB8 (chains
A,B,C,D,E,F,G,H)
AlphaFold prediction matching 3syv
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
A | Q99JB8 | PACN3_MOUSE | 1.92 | 341 | 250 | 100
B | Q99JB8 | PACN3_MOUSE | 1.56 | 341 | 257 | 100
C | Q99JB8 | PACN3_MOUSE | 4.23 | 341 | 257 | 100
D | Q99JB8 | PACN3_MOUSE | 3.55 | 341 | 255 | 100
E | Q99JB8 | PACN3_MOUSE | 1.87 | 341 | 255 | 100
F | Q99JB8 | PACN3_MOUSE | 1.56 | 341 | 255 | 100
G | Q99JB8 | PACN3_MOUSE | 4.94 | 341 | 254 | 100
H | Q99JB8 | PACN3_MOUSE | 1.30 | 341 | 247 | 100
Opened 8 AlphaFold models
> hide #!2 models
> hide #!6 models
> hide target m
> show #!1 models
> show #!15 models
> show #!14 models
> matchmaker #14.1#15.1 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 3qe6, chain B (#1) with AlphaFold PACN3_MOUSE chain A, chain A
(#14.1), sequence alignment score = 1547.5
RMSD between 248 pruned atom pairs is 0.693 angstroms; (across all 286 pairs:
2.171)
Matchmaker 3qe6, chain B (#1) with AlphaFold PACN3_MOUSE chain B, chain B
(#15.1), sequence alignment score = 1547.5
RMSD between 248 pruned atom pairs is 0.693 angstroms; (across all 286 pairs:
2.171)
> show #!16 models
> show #16.1 models
> show #16.2 models
> hide #!15 models
> hide #!14 models
> hide #16.2 models
> hide #16.1 models
> show #!15 models
> hide #!16 models
> show #15.1 models
> show #!14 models
> show #14.1 models
> alphafold match #1
1 AlphaFold model found using UniProt identifier: Q99JB8 (chains A,B)
AlphaFold prediction matching 3qe6
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
A | Q99JB8 | PACN3_MOUSE | 1.83 | 304 | 283 | 100
B | Q99JB8 | PACN3_MOUSE | 2.17 | 304 | 286 | 100
Opened 2 AlphaFold models
> hide #!18 models
> show #!18 models
> close #14
> close #15
> volume style surface
No volumes specified
> ui mousemode right "tape measure"
> marker segment #14 position -31.32,15.52,156.4 toPosition
> -17.91,-10.52,159.1 color yellow radius 0.1 label 29.42 labelHeight 2.942
> labelColor yellow
> marker delete #14
> show #18.1-2#!1 surfaces
> marker segment #14 position 3.483,8.698,95.64 toPosition 12.65,-0.1921,97.71
> color yellow radius 0.1 label 12.93 labelHeight 1.293 labelColor yellow
> ui mousemode right translate
> ui mousemode right "tape measure"
> marker delete #14
> ui mousemode right translate
> hide #!1#!18.1-2 surfaces
> color #!1#!18.1-2 bychain
Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 3 atomic models, 0 maps.
> select add #1
4635 atoms, 4708 bonds, 11 pseudobonds, 605 residues, 4 models selected
> select add #18
9647 atoms, 9836 bonds, 11 pseudobonds, 1213 residues, 9 models selected
Fit in map shortcut requires 1 displayed atomic model and 1 map or two maps,
got 3 atomic models, 0 maps.
> hide #!18 models
> show #!18 models
> volume hide
No volumes specified
> volume hide
No volumes specified
Volume zone shortcut requires 1 displayed atomic model and 1 map, got 3 atomic
models, 0 maps.
Color zone shortcut requires 1 displayed atomic model and 1 map, got 3 atomic
models, 0 maps.
> volume step 1
No volumes specified
> ui tool show "Crystal Contacts"
> crystalcontacts #2
6 pairs of asymmetric units of 3syv contact at distance 3.0 A
Atoms MTRIX SMTRY Unit cell MTRIXref Copies
9 0 0 0 -1 -1 0 1
8 0 0 0 1 0 0 1
8 0 0 0 -1 0 0 1
6 0 0 0 1 1 0 1
4 0 1 1 0 1 0 1
4 0 1 1 -1 1 0 1
> select add #2
26117 atoms, 26562 bonds, 27 pseudobonds, 3352 residues, 13 models selected
> show #!2 models
> hide target m
> show #!1 target m
> show #!2 target m
> hide #!1 target m
> select subtract #1
21482 atoms, 21854 bonds, 16 pseudobonds, 2747 residues, 9 models selected
> select subtract #18
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 4 models selected
> crystalcontacts #2 distance 5 schematic true
8 pairs of asymmetric units of 3syv contact at distance 5.0 A
Atoms MTRIX SMTRY Unit cell MTRIXref Copies
229 0 0 0 1 0 0 1
225 0 1 1 -1 1 0 1
210 0 1 1 0 1 0 1
194 0 0 0 -1 0 0 1
162 0 0 0 -1 -1 0 1
152 0 0 0 1 1 0 1
27 0 0 -1 -1 -1 0 1
21 0 0 1 1 1 0 1
> crystalcontacts #2 distance 4 schematic true
8 pairs of asymmetric units of 3syv contact at distance 4.0 A
Atoms MTRIX SMTRY Unit cell MTRIXref Copies
117 0 1 1 -1 1 0 1
102 0 1 1 0 1 0 1
99 0 0 0 1 0 0 1
89 0 0 0 -1 0 0 1
77 0 0 0 -1 -1 0 1
67 0 0 0 1 1 0 1
11 0 0 -1 -1 -1 0 1
10 0 0 1 1 1 0 1
> crystalcontacts delete #2
> hide #19 models
> show #19 models
> hide #19 models
> show #19 models
> close #19
> crystalcontacts #2 distance 5 schematic true
8 pairs of asymmetric units of 3syv contact at distance 5.0 A
Atoms MTRIX SMTRY Unit cell MTRIXref Copies
229 0 0 0 1 0 0 1
225 0 1 1 -1 1 0 1
210 0 1 1 0 1 0 1
194 0 0 0 -1 0 0 1
162 0 0 0 -1 -1 0 1
152 0 0 0 1 1 0 1
27 0 0 -1 -1 -1 0 1
21 0 0 1 1 1 0 1
> ui tool show "Cage Builder"
> close #19
> crystalcontacts delete #2
> show #16.1 models
> hide #!2 models
> show #!6 models
> hide #!16 models
> hide #16.1 models
> crystalcontacts #2 distance 5 schematic true
8 pairs of asymmetric units of 3syv contact at distance 5.0 A
Atoms MTRIX SMTRY Unit cell MTRIXref Copies
229 0 0 0 1 0 0 1
225 0 1 1 -1 1 0 1
210 0 1 1 0 1 0 1
194 0 0 0 -1 0 0 1
162 0 0 0 -1 -1 0 1
152 0 0 0 1 1 0 1
27 0 0 -1 -1 -1 0 1
21 0 0 1 1 1 0 1
> hide #!6 models
> crystalcontacts delete #2
> crystalcontacts #2 distance 4 schematic true
8 pairs of asymmetric units of 3syv contact at distance 4.0 A
Atoms MTRIX SMTRY Unit cell MTRIXref Copies
117 0 1 1 -1 1 0 1
102 0 1 1 0 1 0 1
99 0 0 0 1 0 0 1
89 0 0 0 -1 0 0 1
77 0 0 0 -1 -1 0 1
67 0 0 0 1 1 0 1
11 0 0 -1 -1 -1 0 1
10 0 0 1 1 1 0 1
> crystalcontacts delete #2
> crystalcontacts #2 schematic true
6 pairs of asymmetric units of 3syv contact at distance 3.0 A
Atoms MTRIX SMTRY Unit cell MTRIXref Copies
9 0 0 0 -1 -1 0 1
8 0 0 0 1 0 0 1
8 0 0 0 -1 0 0 1
6 0 0 0 1 1 0 1
4 0 1 1 0 1 0 1
4 0 1 1 -1 1 0 1
> crystalcontacts delete #2
> crystalcontacts #2 distance 1 schematic true
0 pairs of asymmetric units of 3syv contact at distance 1.0 A
> crystalcontacts #2 distance 2 schematic true
0 pairs of asymmetric units of 3syv contact at distance 2.0 A
> crystalcontacts delete #2
> crystalcontacts #2 schematic true
6 pairs of asymmetric units of 3syv contact at distance 3.0 A
Atoms MTRIX SMTRY Unit cell MTRIXref Copies
9 0 0 0 -1 -1 0 1
8 0 0 0 1 0 0 1
8 0 0 0 -1 0 0 1
6 0 0 0 1 1 0 1
4 0 1 1 0 1 0 1
4 0 1 1 -1 1 0 1
> hide #14 models
> show #14 models
> hide #14 models
> close #15
> close #14
> show #!16 models
> select add #16
22256 atoms, 22760 bonds, 2728 residues, 9 models selected
> show #!17 models
> show #!18 models
> ui tool show "Unit Cell"
QWindowsWindow::setGeometry: Unable to set geometry 3439x1389+0+25 (frame:
3455x1430-8-8) on QWidgetWindow/"MainWindowClassWindow" on "MSI MPG343CQR".
Resulting geometry: 3440x1372+0+25 (frame: 3456x1413-8-8) margins: 8, 33, 8, 8
minimum size: 601x1258 MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0,
y=0), maxtrack=POINT(x=0, y=0), mintrack=POINT(x=680, y=1430)))
> unitcell #1
> show #!1 models
> select add #1
26891 atoms, 27468 bonds, 11 pseudobonds, 3333 residues, 13 models selected
> hide #!1 models
> show #!1 models
> hide #!16 models
> hide #!17 models
> select subtract #16
4635 atoms, 4708 bonds, 11 pseudobonds, 605 residues, 6 models selected
> hide #!14 models
> show #!14 models
> select add #14
13905 atoms, 14124 bonds, 33 pseudobonds, 1815 residues, 15 models selected
> select subtract #14
4635 atoms, 4708 bonds, 11 pseudobonds, 605 residues, 6 models selected
> unitcell #1
> select add #14
13905 atoms, 14124 bonds, 33 pseudobonds, 1815 residues, 15 models selected
> unitcell #1
> unitcell #2
> hide #!14 models
> select subtract #14
4635 atoms, 4708 bonds, 11 pseudobonds, 605 residues, 6 models selected
> select add #15
37575 atoms, 38160 bonds, 43 pseudobonds, 4883 residues, 11 models selected
> select subtract #15
4635 atoms, 4708 bonds, 11 pseudobonds, 605 residues, 6 models selected
> hide #!1 models
> select subtract #1
2 models selected
> show #!2 models
> select add #2
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> ui mousemode right translate
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.6354,0.59947,-0.48672,23.34,-0.69636,0.71723,-0.025698,67.982,0.33368,0.35526,0.87318,-32.646
> view matrix models
> #2,0.6354,0.59947,-0.48672,27.924,-0.69636,0.71723,-0.025698,68.808,0.33368,0.35526,0.87318,-31.369
> view matrix models
> #2,0.6354,0.59947,-0.48672,33.41,-0.69636,0.71723,-0.025698,69.096,0.33368,0.35526,0.87318,-27.637
> hide #!18 models
> show #!18 models
> hide #!18 models
> hide #!15 models
> show #!15 models
> view matrix models
> #2,0.6354,0.59947,-0.48672,31.82,-0.69636,0.71723,-0.025698,73.113,0.33368,0.35526,0.87318,-34.181
> view matrix models
> #2,0.6354,0.59947,-0.48672,17.111,-0.69636,0.71723,-0.025698,43.895,0.33368,0.35526,0.87318,-63.848
> view matrix models
> #2,0.6354,0.59947,-0.48672,17.008,-0.69636,0.71723,-0.025698,43.852,0.33368,0.35526,0.87318,-64.131
> select clear
> select add #15.2/B:85
11 atoms, 11 bonds, 1 residue, 1 model selected
Drag select of 382 residues, 1 pseudobonds
> view matrix models
> #15.2,0.6354,0.59947,-0.48672,-17.998,-0.69636,0.71723,-0.025698,-23.923,0.33368,0.35526,0.87318,-90.063
> view matrix models
> #15.2,0.6354,0.59947,-0.48672,-20.137,-0.69636,0.71723,-0.025698,-42.864,0.33368,0.35526,0.87318,-87.547
> ui mousemode right "rotate selected models"
> view matrix models
> #15.2,-0.8264,-0.44546,0.34443,174.37,-0.48155,0.87613,-0.022276,-84.553,-0.29184,-0.18427,-0.93855,221.93
> ui mousemode right "translate selected models"
> view matrix models
> #15.2,-0.8264,-0.44546,0.34443,350.15,-0.48155,0.87613,-0.022276,-25.755,-0.29184,-0.18427,-0.93855,297.61
> unitcell #2
> hide #!2 models
> show #!2 models
> hide #!2 models
> hide #!15 models
> hide #!15.1 models
> show #!15.1 models
> select add #15.2
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select subtract #15.2
Nothing selected
> select add #15.1
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select add #15.2
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> select subtract #15.1
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> view matrix models
> #15.2,0.6354,0.59947,-0.48672,26.788,-0.69636,0.71723,-0.025698,-2.9492,0.33368,0.35526,0.87318,-73.33
> view matrix models
> #15.2,0.6354,0.59947,-0.48672,-24.996,-0.69636,0.71723,-0.025698,32.485,0.33368,0.35526,0.87318,-85.111
> view matrix models
> #15.2,0.6354,0.59947,-0.48672,-6.5763,-0.69636,0.71723,-0.025698,47.701,0.33368,0.35526,0.87318,-72.996
> show #!2 models
> select add #2
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> hide #!2 models
> show #!2 models
> unitcell #2
> view matrix models
> #2,0.6354,0.59947,-0.48672,17.625,-0.69636,0.71723,-0.025698,43.937,0.33368,0.35526,0.87318,-63.845,#15.2,0.6354,0.59947,-0.48672,17.625,-0.69636,0.71723,-0.025698,43.937,0.33368,0.35526,0.87318,-63.845
> select add #15
49410 atoms, 50178 bonds, 48 pseudobonds, 6417 residues, 7 models selected
> select subtract #15
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select add #15.2
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> select subtract #15.2
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select add #15.2
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> view matrix models
> #2,0.6354,0.59947,-0.48672,34.118,-0.69636,0.71723,-0.025698,93.032,0.33368,0.35526,0.87318,-42.895,#15.2,0.6354,0.59947,-0.48672,34.118,-0.69636,0.71723,-0.025698,93.032,0.33368,0.35526,0.87318,-42.895
> view matrix models
> #2,0.6354,0.59947,-0.48672,40.101,-0.69636,0.71723,-0.025698,89.115,0.33368,0.35526,0.87318,-41.484,#15.2,0.6354,0.59947,-0.48672,40.101,-0.69636,0.71723,-0.025698,89.115,0.33368,0.35526,0.87318,-41.484
> view matrix models
> #2,0.6354,0.59947,-0.48672,71.179,-0.69636,0.71723,-0.025698,96.207,0.33368,0.35526,0.87318,-73.349,#15.2,0.6354,0.59947,-0.48672,71.179,-0.69636,0.71723,-0.025698,96.207,0.33368,0.35526,0.87318,-73.349
> view matrix models
> #2,0.6354,0.59947,-0.48672,63.624,-0.69636,0.71723,-0.025698,99.976,0.33368,0.35526,0.87318,-61.042,#15.2,0.6354,0.59947,-0.48672,63.624,-0.69636,0.71723,-0.025698,99.976,0.33368,0.35526,0.87318,-61.042
> view matrix models
> #2,0.6354,0.59947,-0.48672,81.964,-0.69636,0.71723,-0.025698,127.91,0.33368,0.35526,0.87318,-56.36,#15.2,0.6354,0.59947,-0.48672,81.964,-0.69636,0.71723,-0.025698,127.91,0.33368,0.35526,0.87318,-56.36
> view matrix models
> #2,0.6354,0.59947,-0.48672,103.62,-0.69636,0.71723,-0.025698,156.5,0.33368,0.35526,0.87318,-63.58,#15.2,0.6354,0.59947,-0.48672,103.62,-0.69636,0.71723,-0.025698,156.5,0.33368,0.35526,0.87318,-63.58
> view matrix models
> #2,0.6354,0.59947,-0.48672,107.01,-0.69636,0.71723,-0.025698,161.39,0.33368,0.35526,0.87318,-63.506,#15.2,0.6354,0.59947,-0.48672,107.01,-0.69636,0.71723,-0.025698,161.39,0.33368,0.35526,0.87318,-63.506
> view matrix models
> #2,0.6354,0.59947,-0.48672,-23.756,-0.69636,0.71723,-0.025698,-45.775,0.33368,0.35526,0.87318,-119.96,#15.2,0.6354,0.59947,-0.48672,-23.756,-0.69636,0.71723,-0.025698,-45.775,0.33368,0.35526,0.87318,-119.96
> view matrix models
> #2,0.6354,0.59947,-0.48672,31.608,-0.69636,0.71723,-0.025698,46.778,0.33368,0.35526,0.87318,-82.036,#15.2,0.6354,0.59947,-0.48672,31.608,-0.69636,0.71723,-0.025698,46.778,0.33368,0.35526,0.87318,-82.036
> view matrix models
> #2,0.6354,0.59947,-0.48672,21.777,-0.69636,0.71723,-0.025698,-12.725,0.33368,0.35526,0.87318,-103.26,#15.2,0.6354,0.59947,-0.48672,21.777,-0.69636,0.71723,-0.025698,-12.725,0.33368,0.35526,0.87318,-103.26
> view matrix models
> #2,0.6354,0.59947,-0.48672,43.28,-0.69636,0.71723,-0.025698,24.168,0.33368,0.35526,0.87318,-88.766,#15.2,0.6354,0.59947,-0.48672,43.28,-0.69636,0.71723,-0.025698,24.168,0.33368,0.35526,0.87318,-88.766
> view matrix models
> #2,0.6354,0.59947,-0.48672,94.356,-0.69636,0.71723,-0.025698,64.133,0.33368,0.35526,0.87318,-70.65,#15.2,0.6354,0.59947,-0.48672,94.356,-0.69636,0.71723,-0.025698,64.133,0.33368,0.35526,0.87318,-70.65
> view matrix models
> #2,0.6354,0.59947,-0.48672,43.528,-0.69636,0.71723,-0.025698,61.582,0.33368,0.35526,0.87318,-87.153,#15.2,0.6354,0.59947,-0.48672,43.528,-0.69636,0.71723,-0.025698,61.582,0.33368,0.35526,0.87318,-87.153
> view matrix models
> #2,0.6354,0.59947,-0.48672,30.121,-0.69636,0.71723,-0.025698,73.287,0.33368,0.35526,0.87318,-50.703,#15.2,0.6354,0.59947,-0.48672,30.121,-0.69636,0.71723,-0.025698,73.287,0.33368,0.35526,0.87318,-50.703
> view matrix models
> #2,0.6354,0.59947,-0.48672,26.287,-0.69636,0.71723,-0.025698,66.38,0.33368,0.35526,0.87318,-56.268,#15.2,0.6354,0.59947,-0.48672,26.287,-0.69636,0.71723,-0.025698,66.38,0.33368,0.35526,0.87318,-56.268
> view matrix models
> #2,0.6354,0.59947,-0.48672,33.665,-0.69636,0.71723,-0.025698,65.819,0.33368,0.35526,0.87318,-67.158,#15.2,0.6354,0.59947,-0.48672,33.665,-0.69636,0.71723,-0.025698,65.819,0.33368,0.35526,0.87318,-67.158
> view matrix models
> #2,0.6354,0.59947,-0.48672,35.295,-0.69636,0.71723,-0.025698,67.032,0.33368,0.35526,0.87318,-67.479,#15.2,0.6354,0.59947,-0.48672,35.295,-0.69636,0.71723,-0.025698,67.032,0.33368,0.35526,0.87318,-67.479
> select subtract #15.2
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select add #15
49410 atoms, 50178 bonds, 48 pseudobonds, 6417 residues, 7 models selected
> select subtract #15
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> hide #!15 models
> unitcell #2
> show #!15 models
> hide #!15 models
> show #!15 models
> unitcell outline #2
> unitcell #2 cells 2,2,2 offset 1,1,1
> view matrix models
> #2,0.6354,0.59947,-0.48672,25.707,-0.69636,0.71723,-0.025698,73.667,0.33368,0.35526,0.87318,-63.405
> view matrix models
> #2,0.6354,0.59947,-0.48672,14.227,-0.69636,0.71723,-0.025698,79.787,0.33368,0.35526,0.87318,-56.495
> undo
> unitcell #2 cells 2,2,2 offset 2,2,2
> view matrix models
> #2,0.6354,0.59947,-0.48672,30.783,-0.69636,0.71723,-0.025698,68.142,0.33368,0.35526,0.87318,-69.385
> view matrix models
> #2,0.6354,0.59947,-0.48672,44.8,-0.69636,0.71723,-0.025698,70.953,0.33368,0.35526,0.87318,-62.49
> view matrix models
> #2,0.6354,0.59947,-0.48672,45.171,-0.69636,0.71723,-0.025698,72.664,0.33368,0.35526,0.87318,-62.053
> unitcell #2 cells 2,2,2 offset 2,2,2
> ui mousemode right rotate
> close #15
> show #!16 models
> hide #!16 models
> hide #19 models
> show #19 models
> unitcell #2 cells 2,2,2 offset 2,2,2
> close #15
> unitcell #2 cells 2,1,1 offset 2,2,2
> select add #15.1
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> select subtract #15.1
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select add #15.2
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> select add #15
82350 atoms, 83630 bonds, 80 pseudobonds, 10695 residues, 11 models selected
> select subtract #15
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select add #15.2
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 4 models selected
> select subtract #2
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select subtract #15.2
Nothing selected
> select add #15.3
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #15.3,0.6354,0.59947,-0.48672,179.52,-0.69636,0.71723,-0.025698,77.732,0.33368,0.35526,0.87318,-45.995
> select subtract #15.3
Nothing selected
> select add #15.4
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,112.68,-0.69636,0.71723,-0.025698,76.508,0.33368,0.35526,0.87318,-54.999
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,30.051,-0.69636,0.71723,-0.025698,47.641,0.33368,0.35526,0.87318,-44.716
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,131.88,-0.69636,0.71723,-0.025698,100.52,0.33368,0.35526,0.87318,-70.935
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,140.52,-0.69636,0.71723,-0.025698,166.87,0.33368,0.35526,0.87318,-35.23
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,140.38,-0.69636,0.71723,-0.025698,168.09,0.33368,0.35526,0.87318,-39.832
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,148.95,-0.69636,0.71723,-0.025698,148.18,0.33368,0.35526,0.87318,-61.407
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,156.93,-0.69636,0.71723,-0.025698,141.64,0.33368,0.35526,0.87318,-77.882
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,155.03,-0.69636,0.71723,-0.025698,142.84,0.33368,0.35526,0.87318,-81.711
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,168.57,-0.69636,0.71723,-0.025698,137.55,0.33368,0.35526,0.87318,-129.62
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,160.47,-0.69636,0.71723,-0.025698,153.21,0.33368,0.35526,0.87318,-66.217
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,164.16,-0.69636,0.71723,-0.025698,156.27,0.33368,0.35526,0.87318,-58.893
> view matrix models
> #15.4,0.6354,0.59947,-0.48672,164.1,-0.69636,0.71723,-0.025698,154.81,0.33368,0.35526,0.87318,-65.946
> select subtract #15.4
Nothing selected
> select add #15.3
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select subtract #15.3
Nothing selected
> select add #19
1 model selected
> view matrix models
> #19,0.6354,0.59947,-0.48672,48.992,-0.69636,0.71723,-0.025698,78.619,0.33368,0.35526,0.87318,-71.161
> view matrix models
> #19,0.6354,0.59947,-0.48672,41.633,-0.69636,0.71723,-0.025698,69.954,0.33368,0.35526,0.87318,-60.248
> view matrix models
> #19,0.6354,0.59947,-0.48672,41.184,-0.69636,0.71723,-0.025698,73.409,0.33368,0.35526,0.87318,-63.434
> view matrix models
> #19,0.6354,0.59947,-0.48672,33.52,-0.69636,0.71723,-0.025698,72.051,0.33368,0.35526,0.87318,-47.808
> view matrix models
> #19,0.6354,0.59947,-0.48672,35.276,-0.69636,0.71723,-0.025698,73.324,0.33368,0.35526,0.87318,-48.78
> view matrix models
> #19,0.6354,0.59947,-0.48672,32.645,-0.69636,0.71723,-0.025698,73.614,0.33368,0.35526,0.87318,-41.361
> view matrix models
> #19,0.6354,0.59947,-0.48672,-35.664,-0.69636,0.71723,-0.025698,-1.0704,0.33368,0.35526,0.87318,-71.892
> view matrix models
> #19,0.6354,0.59947,-0.48672,59.933,-0.69636,0.71723,-0.025698,-2.6122,0.33368,0.35526,0.87318,-3.2049
> view matrix models
> #19,0.6354,0.59947,-0.48672,54.871,-0.69636,0.71723,-0.025698,14.977,0.33368,0.35526,0.87318,-2.912
> view matrix models
> #19,0.6354,0.59947,-0.48672,73.121,-0.69636,0.71723,-0.025698,17.877,0.33368,0.35526,0.87318,10.917
> view matrix models
> #19,0.6354,0.59947,-0.48672,57.177,-0.69636,0.71723,-0.025698,28.395,0.33368,0.35526,0.87318,47.84
> view matrix models
> #19,0.6354,0.59947,-0.48672,66.813,-0.69636,0.71723,-0.025698,22.422,0.33368,0.35526,0.87318,56.68
> close #15
> view matrix models
> #19,0.6354,0.59947,-0.48672,67.579,-0.69636,0.71723,-0.025698,23.342,0.33368,0.35526,0.87318,34.196
> view matrix models
> #19,0.6354,0.59947,-0.48672,75.446,-0.69636,0.71723,-0.025698,36.09,0.33368,0.35526,0.87318,-30.74
> view matrix models
> #19,0.6354,0.59947,-0.48672,31.516,-0.69636,0.71723,-0.025698,85.692,0.33368,0.35526,0.87318,-46.55
> view matrix models
> #19,0.6354,0.59947,-0.48672,35.57,-0.69636,0.71723,-0.025698,80.906,0.33368,0.35526,0.87318,-42.798
> view matrix models
> #19,0.6354,0.59947,-0.48672,36.378,-0.69636,0.71723,-0.025698,81.753,0.33368,0.35526,0.87318,-42.493
> view matrix models
> #19,0.6354,0.59947,-0.48672,24.208,-0.69636,0.71723,-0.025698,70.297,0.33368,0.35526,0.87318,-43.204
> view matrix models
> #19,0.6354,0.59947,-0.48672,27.205,-0.69636,0.71723,-0.025698,68.647,0.33368,0.35526,0.87318,-41.39
> hide #!2 models
> show #!1 models
> view matrix models
> #19,0.6354,0.59947,-0.48672,-14.98,-0.69636,0.71723,-0.025698,37.627,0.33368,0.35526,0.87318,-16.778
> view matrix models
> #19,0.6354,0.59947,-0.48672,-26.1,-0.69636,0.71723,-0.025698,15.226,0.33368,0.35526,0.87318,-30.409
> view matrix models
> #19,0.6354,0.59947,-0.48672,-22.657,-0.69636,0.71723,-0.025698,13.525,0.33368,0.35526,0.87318,-28.324
> unitcell #1 cells 2,1,1 offset 2,2,2 pack false
> view matrix models
> #19,0.6354,0.59947,-0.48672,-21.199,-0.69636,0.71723,-0.025698,11.861,0.33368,0.35526,0.87318,-27.712
> show #!14 models
> unitcell #1 cells 2,1,1 offset 2,2,2 pack false
> hide #19 models
> select subtract #19
Nothing selected
> show #19 models
> hide #19 models
> show #!18 models
> hide #!14 models
> show #!14 models
> hide #!14 models
> hide #!18 models
> hide #!1 models
> show #!1 models
> show #!14 models
> hide #!14 models
> close #14
> unitcell #1 cells 2,2,2 offset 2,2,2
> hide #!14 models
> show #!13 models
> hide #!1 models
> hide #!13 models
> show #!12 models
> hide #!12 models
> show #!11 models
> select add #11
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select subtract #11
Nothing selected
> hide #!11 models
> show #!10 models
> hide #!10 models
> show #!9 models
> hide #!9 models
> show #!8 models
> hide #!8 models
> show #!7 models
> hide #!7 models
> show #!5 models
> hide #!5 models
> show #!4 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!4 models
> show #!4 models
> select add #4
4560 atoms, 4651 bonds, 3 pseudobonds, 576 residues, 3 models selected
> hide #!4 models
> show #!4 models
> show #!3 models
> select add #3
9120 atoms, 9302 bonds, 6 pseudobonds, 1152 residues, 6 models selected
> select subtract #4
4560 atoms, 4651 bonds, 3 pseudobonds, 576 residues, 3 models selected
> hide #!4 models
> hide #!5 models
> show #!4 models
> hide #!4 models
> view matrix models
> #3,-0.9683,-0.24934,0.015186,45.112,-0.24975,0.96501,-0.079884,10.073,0.0052643,-0.081144,-0.99669,180.82
> show #!17 models
> select add #17
9820 atoms, 10029 bonds, 3 pseudobonds, 1216 residues, 6 models selected
> hide #!3 models
> show #!3 models
> view sel
> hide #!17 models
> show #!17 models
> show #17.1 models
> show #17.2 models
> hide #17.2 models
> show #17.2 models
> hide #17.1 models
> show #17.1 models
> undo
> show #!17 models
> show #17.2 models
> show #17.1 models
> hide #17.1 models
> undo
> show #17.1 models
> show #17.2 models
> hide #17.2 models
> undo
> show #17.1 models
> show #17.2 models
> show #!3 models
> hide #!3 models
> hide #17.2 models
> hide #17.1 models
> show #17.2 models
> hide #17.2 models
> show #17.1 models
> hide #17.1 models
> show #17.2 models
> hide #17.2 models
> show #17.1 models
> show #17.2 models
> show #!3 models
> matchmaker #!18.1-2 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 3m3w, chain A (#3) with AlphaFold PACN3_MOUSE chain A, chain A
(#18.1), sequence alignment score = 1597.6
RMSD between 257 pruned atom pairs is 0.792 angstroms; (across all 280 pairs:
1.262)
Matchmaker 3m3w, chain A (#3) with AlphaFold PACN3_MOUSE chain B, chain B
(#18.2), sequence alignment score = 1597.6
RMSD between 257 pruned atom pairs is 0.792 angstroms; (across all 280 pairs:
1.262)
> matchmaker #!18.1-2 to #4
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 3M3W_A, chain A (#4) with AlphaFold PACN3_MOUSE chain A, chain A
(#18.1), sequence alignment score = 1597.6
RMSD between 257 pruned atom pairs is 0.792 angstroms; (across all 280 pairs:
1.262)
Matchmaker 3M3W_A, chain A (#4) with AlphaFold PACN3_MOUSE chain B, chain B
(#18.2), sequence alignment score = 1597.6
RMSD between 257 pruned atom pairs is 0.792 angstroms; (across all 280 pairs:
1.262)
> show #!4 models
> show #!5 models
> select add #5
14380 atoms, 14680 bonds, 6 pseudobonds, 1792 residues, 9 models selected
> select add #4
18940 atoms, 19331 bonds, 9 pseudobonds, 2368 residues, 12 models selected
> hide #!5 models
> show #!5 models
> hide #!4 models
> show #!4 models
> hide #!3 models
> show #!3 models
> hide #!17 models
> show #!17 models
> hide #17.2 models
> show #17.2 models
> hide #!17 models
> show #!17 models
> hide #!4 models
> hide #!5 models
> show #!5 models
> show #!4 models
> hide #!4 models
> select subtract #4
14380 atoms, 14680 bonds, 6 pseudobonds, 1792 residues, 9 models selected
> select add #4
18940 atoms, 19331 bonds, 9 pseudobonds, 2368 residues, 12 models selected
> hide #!5 models
> show #!5 models
> select subtract #4
14380 atoms, 14680 bonds, 6 pseudobonds, 1792 residues, 9 models selected
> show #!4 models
> hide #!3 models
> hide #!4 models
> show #!4 models
> hide #!5 models
> hide #!4 models
> show #!4 models
> hide #!4 models
> show #!4 models
> view matrix models
> #3,-0.9683,-0.24934,0.015186,113.8,-0.24975,0.96501,-0.079884,4.5693,0.0052643,-0.081144,-0.99669,168.24,#5,-0.9683,-0.24934,0.015186,81.709,-0.24975,0.96501,-0.079884,3.7639,0.0052643,-0.081144,-0.99669,159.81,#17,1,0,0,68.684,0,1,0,-5.5033,0,0,1,-12.579
> show #!5 models
> view matrix models
> #3,-0.9683,-0.24934,0.015186,126.09,-0.24975,0.96501,-0.079884,37.742,0.0052643,-0.081144,-0.99669,169.38,#5,-0.9683,-0.24934,0.015186,94,-0.24975,0.96501,-0.079884,36.937,0.0052643,-0.081144,-0.99669,160.95,#17,1,0,0,80.975,0,1,0,27.67,0,0,1,-11.439
> hide #!17 models
> view matrix models
> #3,-0.9683,-0.24934,0.015186,97.303,-0.24975,0.96501,-0.079884,23.41,0.0052643,-0.081144,-0.99669,205.29,#5,-0.9683,-0.24934,0.015186,65.216,-0.24975,0.96501,-0.079884,22.605,0.0052643,-0.081144,-0.99669,196.86,#17,1,0,0,52.19,0,1,0,13.338,0,0,1,24.474
> hide #!4 models
> show #!4 models
> view matrix models
> #3,-0.9683,-0.24934,0.015186,94.801,-0.24975,0.96501,-0.079884,24.12,0.0052643,-0.081144,-0.99669,213.36,#5,-0.9683,-0.24934,0.015186,62.714,-0.24975,0.96501,-0.079884,23.315,0.0052643,-0.081144,-0.99669,204.93,#17,1,0,0,49.688,0,1,0,14.048,0,0,1,32.544
> show #!3 models
> hide #!3 models
> close #17,19#1-14,16,18
> open pdb:3QE6
3qe6 title:
Mouse PACSIN 3 F-BAR domain structure [more info...]
Chain information for 3qe6 #1
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 4-307
Non-standard residues in 3qe6 #1
---
MG — magnesium ion
4631 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> matchmaker #1/A to #1/A
Must use different reference and match structures
> open pdb:3QE6
3qe6 title:
Mouse PACSIN 3 F-BAR domain structure [more info...]
Chain information for 3qe6 #2
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 4-307
Non-standard residues in 3qe6 #2
---
MG — magnesium ion
4631 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> matchmaker #2/B to #1/A
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 3QE6_A, chain A (#1) with 3QE6_B, chain B (#2), sequence alignment
score = 1555.9
RMSD between 252 pruned atom pairs is 0.588 angstroms; (across all 281 pairs:
1.666)
> open pdb:3M3W
3m3w title:
Crystal structure of mouse PACSIN3 BAR domain mutant [more info...]
Chain information for 3m3w #3
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-320
4550 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> matchmaker #3/A to #1/A
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 3QE6_A, chain A (#1) with 3M3W_A, chain A (#3), sequence alignment
score = 1551.1
RMSD between 242 pruned atom pairs is 0.630 angstroms; (across all 274 pairs:
1.514)
> open pdb:3M3W
3m3w title:
Crystal structure of mouse PACSIN3 BAR domain mutant [more info...]
Chain information for 3m3w #4
---
Chain | Description | UniProt
A B | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-320
4550 atoms have anisotropic B-factors. Depict anisotropic information with
Thermal Ellipsoids [start tool...] or the aniso command.
> matchmaker #4/B to #1/A
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 3QE6_A, chain A (#1) with 3M3W_B, chain B (#4), sequence alignment
score = 1518.7
RMSD between 234 pruned atom pairs is 0.829 angstroms; (across all 279 pairs:
1.943)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #5
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #5/A to #1/A
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 3QE6_A, chain A (#1) with 3SYV_A, chain A (#5), sequence alignment
score = 1508.3
RMSD between 216 pruned atom pairs is 0.746 angstroms; (across all 249 pairs:
1.942)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #6
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #6/B to #1/A
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 3QE6_A, chain A (#1) with 3SYV_B, chain B (#6), sequence alignment
score = 1494.5
RMSD between 232 pruned atom pairs is 0.854 angstroms; (across all 257 pairs:
1.776)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #7
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #7/C to #1/A
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 3QE6_A, chain A (#1) with 3SYV_C, chain C (#7), sequence alignment
score = 1512.5
RMSD between 214 pruned atom pairs is 0.769 angstroms; (across all 251 pairs:
1.908)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #8
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #8/D to #1/A
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 3QE6_A, chain A (#1) with 3SYV_D, chain D (#8), sequence alignment
score = 1520.3
RMSD between 230 pruned atom pairs is 0.856 angstroms; (across all 255 pairs:
3.680)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #9
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #9/E to #1/A
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 3QE6_A, chain A (#1) with 3SYV_E, chain E (#9), sequence alignment
score = 1487.3
RMSD between 220 pruned atom pairs is 0.771 angstroms; (across all 254 pairs:
1.971)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #10
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #10/F to #1/A
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 3QE6_A, chain A (#1) with 3SYV_F, chain F (#10), sequence alignment
score = 1496.3
RMSD between 233 pruned atom pairs is 0.847 angstroms; (across all 255 pairs:
1.561)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #11
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #11/G to #1/A
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 3QE6_A, chain A (#1) with 3SYV_G, chain G (#11), sequence alignment
score = 1496.3
RMSD between 212 pruned atom pairs is 0.761 angstroms; (across all 246 pairs:
1.718)
> open pdb:3SYV
Summary of feedback from opening 3SYV fetched from pdb
---
warnings | Atom OE1 has no neighbors to form bonds with according to residue template for GLU /B:229
Atom OE2 has no neighbors to form bonds with according to residue template for
GLU /B:229
3syv title:
Crystal structure of mPACSIN 3 F-BAR domain mutant [more info...]
Chain information for 3syv #12
---
Chain | Description | UniProt
A B C D E F G H | Protein kinase C and casein kinase II substrate protein 3 | PACN3_MOUSE 1-341
3syv mmCIF Assemblies
---
1| author_and_software_defined_assembly
2| author_and_software_defined_assembly
3| author_and_software_defined_assembly
4| author_and_software_defined_assembly
> matchmaker #12/H to #1/A
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 3QE6_A, chain A (#1) with 3SYV_H, chain H (#12), sequence alignment
score = 1506.5
RMSD between 230 pruned atom pairs is 0.833 angstroms; (across all 247 pairs:
1.234)
> select all
150150 atoms, 152526 bonds, 156 pseudobonds, 19474 residues, 30 models
selected
> hbonds sel reveal true
96 atoms were skipped as donors/acceptors due to missing heavy-atom bond
partners
85355 hydrogen bonds found
> show sel cartoons
> view matrix models
> #1,1,0,0,-4.7004,0,1,0,-0.5141,0,0,1,0,#2,-0.94633,-0.32197,0.028318,4.2807,-0.32271,0.93632,-0.13843,13.073,0.018056,-0.14014,-0.98997,168.77,#3,0.99669,-0.078661,-0.020319,-5.7877,0.079708,0.99517,0.057241,-6.185,0.015718,-0.058671,0.99815,-2.9202,#4,-0.95931,-0.27827,0.047785,5.3494,-0.28225,0.94953,-0.13687,13.939,-0.0072851,-0.14479,-0.98944,171.62,#5,0.66785,0.56585,-0.48352,-1.8887,-0.64649,0.76292,-0.00011722,13.524,0.36882,0.31267,0.87533,55.664,#6,-0.36617,-0.79243,0.48783,-2.2236,-0.90733,0.42042,0.001878,19.305,-0.20658,-0.44193,-0.87294,109.83,#7,0.66669,0.566,-0.48495,3.3443,-0.64702,0.76248,0.00042119,52.459,0.37,0.31349,0.87454,-48.352,#8,-0.36294,-0.79291,0.48946,-26.244,-0.90836,0.41817,0.0038627,73.629,-0.20774,-0.4432,-0.87202,203.89,#9,-0.66651,-0.56597,-0.48522,146.32,0.6474,-0.76215,-0.00030618,47.474,-0.36963,-0.31434,0.87439,10.708,#10,0.36937,0.79068,0.48825,-154.15,0.905,-0.42539,0.0042379,4.9006,0.21105,0.4403,-0.87269,152.18,#11,-0.66454,-0.56783,-0.48575,231.84,0.64878,-0.76097,0.0019752,7.7131,-0.37076,-0.31383,0.8741,-48.589,#12,0.36801,0.79064,0.48935,-222.16,0.90533,-0.42468,0.0052969,-50.339,0.212,0.44107,-0.87207,220.78
> show sel cartoons
> hide (#!1-12 & sel-residues & (protein|nucleic)) target a
> cartoon hide (#!1-12 & sel-residues)
> show (#!1-12 & sel-residues & backbone) target ab
> view matrix models
> #1,1,0,0,-6.1693,0,1,0,1.1017,0,0,1,0,#2,-0.94633,-0.32197,0.028318,2.8118,-0.32271,0.93632,-0.13843,14.689,0.018056,-0.14014,-0.98997,168.77,#3,0.99669,-0.078661,-0.020319,-7.2566,0.079708,0.99517,0.057241,-4.5693,0.015718,-0.058671,0.99815,-2.9202,#4,-0.95931,-0.27827,0.047785,3.8806,-0.28225,0.94953,-0.13687,15.555,-0.0072851,-0.14479,-0.98944,171.62,#5,0.66785,0.56585,-0.48352,-3.3576,-0.64649,0.76292,-0.00011722,15.14,0.36882,0.31267,0.87533,55.664,#6,-0.36617,-0.79243,0.48783,-3.6925,-0.90733,0.42042,0.001878,20.921,-0.20658,-0.44193,-0.87294,109.83,#7,0.66669,0.566,-0.48495,1.8754,-0.64702,0.76248,0.00042119,54.074,0.37,0.31349,0.87454,-48.352,#8,-0.36294,-0.79291,0.48946,-27.713,-0.90836,0.41817,0.0038627,75.245,-0.20774,-0.4432,-0.87202,203.89,#9,-0.66651,-0.56597,-0.48522,144.85,0.6474,-0.76215,-0.00030618,49.089,-0.36963,-0.31434,0.87439,10.708,#10,0.36937,0.79068,0.48825,-155.62,0.905,-0.42539,0.0042379,6.5164,0.21105,0.4403,-0.87269,152.18,#11,-0.66454,-0.56783,-0.48575,230.38,0.64878,-0.76097,0.0019752,9.3289,-0.37076,-0.31383,0.8741,-48.589,#12,0.36801,0.79064,0.48935,-223.63,0.90533,-0.42468,0.0052969,-48.723,0.212,0.44107,-0.87207,220.78
> show sel cartoons
> view matrix models
> #1,1,0,0,-7.4178,0,1,0,-10.356,0,0,1,0,#2,-0.94633,-0.32197,0.028318,1.5633,-0.32271,0.93632,-0.13843,3.2316,0.018056,-0.14014,-0.98997,168.77,#3,0.99669,-0.078661,-0.020319,-8.5051,0.079708,0.99517,0.057241,-16.026,0.015718,-0.058671,0.99815,-2.9202,#4,-0.95931,-0.27827,0.047785,2.632,-0.28225,0.94953,-0.13687,4.0974,-0.0072851,-0.14479,-0.98944,171.62,#5,0.66785,0.56585,-0.48352,-4.6061,-0.64649,0.76292,-0.00011722,3.6824,0.36882,0.31267,0.87533,55.664,#6,-0.36617,-0.79243,0.48783,-4.941,-0.90733,0.42042,0.001878,9.4634,-0.20658,-0.44193,-0.87294,109.83,#7,0.66669,0.566,-0.48495,0.62688,-0.64702,0.76248,0.00042119,42.617,0.37,0.31349,0.87454,-48.352,#8,-0.36294,-0.79291,0.48946,-28.962,-0.90836,0.41817,0.0038627,63.788,-0.20774,-0.4432,-0.87202,203.89,#9,-0.66651,-0.56597,-0.48522,143.6,0.6474,-0.76215,-0.00030618,37.632,-0.36963,-0.31434,0.87439,10.708,#10,0.36937,0.79068,0.48825,-156.87,0.905,-0.42539,0.0042379,-4.9408,0.21105,0.4403,-0.87269,152.18,#11,-0.66454,-0.56783,-0.48575,229.13,0.64878,-0.76097,0.0019752,-2.1283,-0.37076,-0.31383,0.8741,-48.589,#12,0.36801,0.79064,0.48935,-224.88,0.90533,-0.42468,0.0052969,-60.18,0.212,0.44107,-0.87207,220.78
> view matrix models
> #1,1,0,0,0.056096,0,1,0,-20.858,0,0,1,3.0088,#2,-0.94633,-0.32197,0.028318,9.0372,-0.32271,0.93632,-0.13843,-7.2711,0.018056,-0.14014,-0.98997,171.78,#3,0.99669,-0.078661,-0.020319,-1.0313,0.079708,0.99517,0.057241,-26.529,0.015718,-0.058671,0.99815,0.088618,#4,-0.95931,-0.27827,0.047785,10.106,-0.28225,0.94953,-0.13687,-6.4053,-0.0072851,-0.14479,-0.98944,174.63,#5,0.66785,0.56585,-0.48352,2.8678,-0.64649,0.76292,-0.00011722,-6.8203,0.36882,0.31267,0.87533,58.673,#6,-0.36617,-0.79243,0.48783,2.5329,-0.90733,0.42042,0.001878,-1.0394,-0.20658,-0.44193,-0.87294,112.84,#7,0.66669,0.566,-0.48495,8.1008,-0.64702,0.76248,0.00042119,32.115,0.37,0.31349,0.87454,-45.343,#8,-0.36294,-0.79291,0.48946,-21.488,-0.90836,0.41817,0.0038627,53.285,-0.20774,-0.4432,-0.87202,206.9,#9,-0.66651,-0.56597,-0.48522,151.07,0.6474,-0.76215,-0.00030618,27.129,-0.36963,-0.31434,0.87439,13.716,#10,0.36937,0.79068,0.48825,-149.39,0.905,-0.42539,0.0042379,-15.444,0.21105,0.4403,-0.87269,155.19,#11,-0.66454,-0.56783,-0.48575,236.6,0.64878,-0.76097,0.0019752,-12.631,-0.37076,-0.31383,0.8741,-45.58,#12,0.36801,0.79064,0.48935,-217.41,0.90533,-0.42468,0.0052969,-70.683,0.212,0.44107,-0.87207,223.79
> mlp sel
Map values for surface "3SYV_A_A SES surface": minimum -30.18, mean -3.508,
maximum 24.15
Map values for surface "3SYV_A_B SES surface": minimum -27.86, mean -3.946,
maximum 24.85
Map values for surface "3SYV_A_C SES surface": minimum -30.51, mean -4.094,
maximum 22.98
Map values for surface "3SYV_A_D SES surface": minimum -29.39, mean -3.641,
maximum 23.09
Map values for surface "3SYV_A_E SES surface": minimum -31.13, mean -3.904,
maximum 24.21
Map values for surface "3SYV_A_F SES surface": minimum -30.52, mean -3.768,
maximum 23.7
Map values for surface "3SYV_A_G SES surface": minimum -32.16, mean -4.115,
maximum 23.68
Map values for surface "3SYV_A_H SES surface": minimum -29.01, mean -3.878,
maximum 23.77
Map values for surface "3QE6_A_A SES surface": minimum -29.57, mean -4.056,
maximum 23.52
Map values for surface "3QE6_A_B SES surface": minimum -29.06, mean -4.105,
maximum 23.38
Map values for surface "3QE6_B_A SES surface": minimum -29.09, mean -4.051,
maximum 23.62
Map values for surface "3QE6_B_B SES surface": minimum -28.8, mean -4.102,
maximum 23.49
Map values for surface "3M3W_B_A SES surface": minimum -29.04, mean -4.178,
maximum 24.77
Map values for surface "3M3W_B_B SES surface": minimum -27.97, mean -4.164,
maximum 23.22
Map values for surface "3M3W_A_A SES surface": minimum -29.2, mean -4.177,
maximum 24.49
Map values for surface "3M3W_A_B SES surface": minimum -28.07, mean -4.164,
maximum 22.83
Map values for surface "3SYV_E_A SES surface": minimum -30.24, mean -3.507,
maximum 24.46
Map values for surface "3SYV_E_B SES surface": minimum -27.51, mean -3.942,
maximum 24.6
Map values for surface "3SYV_E_C SES surface": minimum -30.45, mean -4.099,
maximum 22.91
Map values for surface "3SYV_E_D SES surface": minimum -29.88, mean -3.641,
maximum 23.19
Map values for surface "3SYV_E_E SES surface": minimum -31.23, mean -3.911,
maximum 24.27
Map values for surface "3SYV_E_F SES surface": minimum -30.44, mean -3.765,
maximum 23.77
Map values for surface "3SYV_E_G SES surface": minimum -32.01, mean -4.111,
maximum 23.9
Map values for surface "3SYV_E_H SES surface": minimum -28.77, mean -3.881,
maximum 23.17
Map values for surface "3SYV_D_A SES surface": minimum -30.86, mean -3.509,
maximum 24.19
Map values for surface "3SYV_D_B SES surface": minimum -27.98, mean -3.942,
maximum 24.71
Map values for surface "3SYV_D_C SES surface": minimum -30.32, mean -4.099,
maximum 22.7
Map values for surface "3SYV_D_D SES surface": minimum -29.26, mean -3.638,
maximum 23.59
Map values for surface "3SYV_D_E SES surface": minimum -31.1, mean -3.905,
maximum 23.95
Map values for surface "3SYV_D_F SES surface": minimum -30.53, mean -3.766,
maximum 23.75
Map values for surface "3SYV_D_G SES surface": minimum -32.63, mean -4.113,
maximum 23.97
Map values for surface "3SYV_D_H SES surface": minimum -28.99, mean -3.88,
maximum 23.62
Map values for surface "3SYV_G_A SES surface": minimum -30.56, mean -3.507,
maximum 24.32
Map values for surface "3SYV_G_B SES surface": minimum -27.56, mean -3.943,
maximum 24.94
Map values for surface "3SYV_G_C SES surface": minimum -30.39, mean -4.098,
maximum 22.93
Map values for surface "3SYV_G_D SES surface": minimum -29.87, mean -3.641,
maximum 23.19
Map values for surface "3SYV_G_E SES surface": minimum -31.2, mean -3.91,
maximum 24.23
Map values for surface "3SYV_G_F SES surface": minimum -30.44, mean -3.765,
maximum 23.7
Map values for surface "3SYV_G_G SES surface": minimum -32.17, mean -4.111,
maximum 23.82
Map values for surface "3SYV_G_H SES surface": minimum -28.78, mean -3.881,
maximum 23.16
Map values for surface "3SYV_B_A SES surface": minimum -30.48, mean -3.507,
maximum 24.28
Map values for surface "3SYV_B_B SES surface": minimum -27.95, mean -3.941,
maximum 24.51
Map values for surface "3SYV_B_C SES surface": minimum -30.29, mean -4.099,
maximum 22.65
Map values for surface "3SYV_B_D SES surface": minimum -29.26, mean -3.641,
maximum 23.57
Map values for surface "3SYV_B_E SES surface": minimum -30.82, mean -3.906,
maximum 24.33
Map values for surface "3SYV_B_F SES surface": minimum -30.47, mean -3.767,
maximum 23.67
Map values for surface "3SYV_B_G SES surface": minimum -32.72, mean -4.113,
maximum 23.79
Map values for surface "3SYV_B_H SES surface": minimum -28.9, mean -3.88,
maximum 23.59
Map values for surface "3SYV_C_A SES surface": minimum -30.14, mean -3.509,
maximum 24.47
Map values for surface "3SYV_C_B SES surface": minimum -27.86, mean -3.944,
maximum 24.79
Map values for surface "3SYV_C_C SES surface": minimum -30.53, mean -4.094,
maximum 23.01
Map values for surface "3SYV_C_D SES surface": minimum -29.78, mean -3.639,
maximum 23.23
Map values for surface "3SYV_C_E SES surface": minimum -31.13, mean -3.905,
maximum 24.23
Map values for surface "3SYV_C_F SES surface": minimum -30.52, mean -3.767,
maximum 23.51
Map values for surface "3SYV_C_G SES surface": minimum -32.11, mean -4.114,
maximum 23.8
Map values for surface "3SYV_C_H SES surface": minimum -29.01, mean -3.879,
maximum 23.67
Map values for surface "3SYV_F_A SES surface": minimum -30.41, mean -3.505,
maximum 24.2
Map values for surface "3SYV_F_B SES surface": minimum -27.32, mean -3.941,
maximum 24.98
Map values for surface "3SYV_F_C SES surface": minimum -30.42, mean -4.093,
maximum 22.74
Map values for surface "3SYV_F_D SES surface": minimum -29.68, mean -3.642,
maximum 23.69
Map values for surface "3SYV_F_E SES surface": minimum -31.15, mean -3.907,
maximum 24.82
Map values for surface "3SYV_F_F SES surface": minimum -30.43, mean -3.76,
maximum 24.04
Map values for surface "3SYV_F_G SES surface": minimum -32.57, mean -4.117,
maximum 23.19
Map values for surface "3SYV_F_H SES surface": minimum -28.78, mean -3.877,
maximum 23.03
Map values for surface "3SYV_H_A SES surface": minimum -30.04, mean -3.507,
maximum 24.44
Map values for surface "3SYV_H_B SES surface": minimum -27.36, mean -3.942,
maximum 24.98
Map values for surface "3SYV_H_C SES surface": minimum -30.38, mean -4.094,
maximum 22.69
Map values for surface "3SYV_H_D SES surface": minimum -29.68, mean -3.641,
maximum 23.65
Map values for surface "3SYV_H_E SES surface": minimum -31.15, mean -3.908,
maximum 24.79
Map values for surface "3SYV_H_F SES surface": minimum -30.51, mean -3.766,
maximum 24.15
Map values for surface "3SYV_H_G SES surface": minimum -32.58, mean -4.116,
maximum 23.29
Map values for surface "3SYV_H_H SES surface": minimum -28.76, mean -3.878,
maximum 23.04
To also show corresponding color key, enter the above mlp command and add key
true
> view matrix models
> #1,1,0,0,2.8007,0,1,0,-23.847,0,0,1,3.6778,#2,-0.94633,-0.32197,0.028318,11.782,-0.32271,0.93632,-0.13843,-10.26,0.018056,-0.14014,-0.98997,172.44,#3,0.99669,-0.078661,-0.020319,1.7134,0.079708,0.99517,0.057241,-29.518,0.015718,-0.058671,0.99815,0.75762,#4,-0.95931,-0.27827,0.047785,12.851,-0.28225,0.94953,-0.13687,-9.3939,-0.0072851,-0.14479,-0.98944,175.3,#5,0.66785,0.56585,-0.48352,5.6124,-0.64649,0.76292,-0.00011722,-9.809,0.36882,0.31267,0.87533,59.342,#6,-0.36617,-0.79243,0.48783,5.2775,-0.90733,0.42042,0.001878,-4.028,-0.20658,-0.44193,-0.87294,113.51,#7,0.66669,0.566,-0.48495,10.845,-0.64702,0.76248,0.00042119,29.126,0.37,0.31349,0.87454,-44.674,#8,-0.36294,-0.79291,0.48946,-18.743,-0.90836,0.41817,0.0038627,50.297,-0.20774,-0.4432,-0.87202,207.57,#9,-0.66651,-0.56597,-0.48522,153.82,0.6474,-0.76215,-0.00030618,24.141,-0.36963,-0.31434,0.87439,14.385,#10,0.36937,0.79068,0.48825,-146.65,0.905,-0.42539,0.0042379,-18.432,0.21105,0.4403,-0.87269,155.86,#11,-0.66454,-0.56783,-0.48575,239.35,0.64878,-0.76097,0.0019752,-15.62,-0.37076,-0.31383,0.8741,-44.911,#12,0.36801,0.79064,0.48935,-214.66,0.90533,-0.42468,0.0052969,-73.671,0.212,0.44107,-0.87207,224.46
> view matrix models
> #1,1,0,0,3.7384,0,1,0,-27.79,0,0,1,1.5532,#2,-0.94633,-0.32197,0.028318,12.719,-0.32271,0.93632,-0.13843,-14.203,0.018056,-0.14014,-0.98997,170.32,#3,0.99669,-0.078661,-0.020319,2.6511,0.079708,0.99517,0.057241,-33.461,0.015718,-0.058671,0.99815,-1.367,#4,-0.95931,-0.27827,0.047785,13.788,-0.28225,0.94953,-0.13687,-13.337,-0.0072851,-0.14479,-0.98944,173.18,#5,0.66785,0.56585,-0.48352,6.5501,-0.64649,0.76292,-0.00011722,-13.752,0.36882,0.31267,0.87533,57.217,#6,-0.36617,-0.79243,0.48783,6.2152,-0.90733,0.42042,0.001878,-7.9711,-0.20658,-0.44193,-0.87294,111.39,#7,0.66669,0.566,-0.48495,11.783,-0.64702,0.76248,0.00042119,25.183,0.37,0.31349,0.87454,-46.799,#8,-0.36294,-0.79291,0.48946,-17.806,-0.90836,0.41817,0.0038627,46.354,-0.20774,-0.4432,-0.87202,205.45,#9,-0.66651,-0.56597,-0.48522,154.76,0.6474,-0.76215,-0.00030618,20.198,-0.36963,-0.31434,0.87439,12.261,#10,0.36937,0.79068,0.48825,-145.71,0.905,-0.42539,0.0042379,-22.375,0.21105,0.4403,-0.87269,153.73,#11,-0.66454,-0.56783,-0.48575,240.28,0.64878,-0.76097,0.0019752,-19.563,-0.37076,-0.31383,0.8741,-47.036,#12,0.36801,0.79064,0.48935,-213.73,0.90533,-0.42468,0.0052969,-77.614,0.212,0.44107,-0.87207,222.34
> hide target m
> show #!1 models
> view matrix models
> #1,1,0,0,3.5513,0,1,0,-24.87,0,0,1,2.7471,#2,-0.94633,-0.32197,0.028318,12.532,-0.32271,0.93632,-0.13843,-11.283,0.018056,-0.14014,-0.98997,171.51,#3,0.99669,-0.078661,-0.020319,2.4639,0.079708,0.99517,0.057241,-30.541,0.015718,-0.058671,0.99815,-0.17305,#4,-0.95931,-0.27827,0.047785,13.601,-0.28225,0.94953,-0.13687,-10.417,-0.0072851,-0.14479,-0.98944,174.37,#5,0.66785,0.56585,-0.48352,6.3629,-0.64649,0.76292,-0.00011722,-10.832,0.36882,0.31267,0.87533,58.411,#6,-0.36617,-0.79243,0.48783,6.0281,-0.90733,0.42042,0.001878,-5.0509,-0.20658,-0.44193,-0.87294,112.58,#7,0.66669,0.566,-0.48495,11.596,-0.64702,0.76248,0.00042119,28.103,0.37,0.31349,0.87454,-45.605,#8,-0.36294,-0.79291,0.48946,-17.993,-0.90836,0.41817,0.0038627,49.274,-0.20774,-0.4432,-0.87202,206.64,#9,-0.66651,-0.56597,-0.48522,154.57,0.6474,-0.76215,-0.00030618,23.118,-0.36963,-0.31434,0.87439,13.455,#10,0.36937,0.79068,0.48825,-145.9,0.905,-0.42539,0.0042379,-19.455,0.21105,0.4403,-0.87269,154.92,#11,-0.66454,-0.56783,-0.48575,240.1,0.64878,-0.76097,0.0019752,-16.643,-0.37076,-0.31383,0.8741,-45.842,#12,0.36801,0.79064,0.48935,-213.91,0.90533,-0.42468,0.0052969,-74.694,0.212,0.44107,-0.87207,223.53
> style sel & #!1 stick
Changed 4635 atom styles
> show sel & #!1 cartoons
> hide sel & #!1 atoms
> show sel & #!1 surfaces
> hide sel & #!1 surfaces
> color sel & #!1 bypolymer
> show #!2 models
> view matrix models
> #1,1,0,0,2.0173,0,1,0,-18.289,0,0,1,6.0617,#2,-0.94633,-0.32197,0.028318,10.998,-0.32271,0.93632,-0.13843,-4.702,0.018056,-0.14014,-0.98997,174.83,#3,0.99669,-0.078661,-0.020319,0.92994,0.079708,0.99517,0.057241,-23.96,0.015718,-0.058671,0.99815,3.1415,#4,-0.95931,-0.27827,0.047785,12.067,-0.28225,0.94953,-0.13687,-3.8361,-0.0072851,-0.14479,-0.98944,177.68,#5,0.66785,0.56585,-0.48352,4.829,-0.64649,0.76292,-0.00011722,-4.2512,0.36882,0.31267,0.87533,61.726,#6,-0.36617,-0.79243,0.48783,4.4941,-0.90733,0.42042,0.001878,1.5298,-0.20658,-0.44193,-0.87294,115.9,#7,0.66669,0.566,-0.48495,10.062,-0.64702,0.76248,0.00042119,34.684,0.37,0.31349,0.87454,-42.29,#8,-0.36294,-0.79291,0.48946,-19.527,-0.90836,0.41817,0.0038627,55.854,-0.20774,-0.4432,-0.87202,209.96,#9,-0.66651,-0.56597,-0.48522,153.04,0.6474,-0.76215,-0.00030618,29.699,-0.36963,-0.31434,0.87439,16.769,#10,0.36937,0.79068,0.48825,-147.43,0.905,-0.42539,0.0042379,-12.874,0.21105,0.4403,-0.87269,158.24,#11,-0.66454,-0.56783,-0.48575,238.56,0.64878,-0.76097,0.0019752,-10.062,-0.37076,-0.31383,0.8741,-42.528,#12,0.36801,0.79064,0.48935,-215.45,0.90533,-0.42468,0.0052969,-68.114,0.212,0.44107,-0.87207,226.84
> show #!3 models
> view matrix models
> #1,1,0,0,-0.28125,0,1,0,-15.431,0,0,1,4.0977,#2,-0.94633,-0.32197,0.028318,8.6998,-0.32271,0.93632,-0.13843,-1.8442,0.018056,-0.14014,-0.98997,172.86,#3,0.99669,-0.078661,-0.020319,-1.3686,0.079708,0.99517,0.057241,-21.102,0.015718,-0.058671,0.99815,1.1775,#4,-0.95931,-0.27827,0.047785,9.7686,-0.28225,0.94953,-0.13687,-0.97832,-0.0072851,-0.14479,-0.98944,175.72,#5,0.66785,0.56585,-0.48352,2.5304,-0.64649,0.76292,-0.00011722,-1.3934,0.36882,0.31267,0.87533,59.762,#6,-0.36617,-0.79243,0.48783,2.1955,-0.90733,0.42042,0.001878,4.3876,-0.20658,-0.44193,-0.87294,113.93,#7,0.66669,0.566,-0.48495,7.7634,-0.64702,0.76248,0.00042119,37.542,0.37,0.31349,0.87454,-44.254,#8,-0.36294,-0.79291,0.48946,-21.825,-0.90836,0.41817,0.0038627,58.712,-0.20774,-0.4432,-0.87202,207.99,#9,-0.66651,-0.56597,-0.48522,150.74,0.6474,-0.76215,-0.00030618,32.556,-0.36963,-0.31434,0.87439,14.805,#10,0.36937,0.79068,0.48825,-149.73,0.905,-0.42539,0.0042379,-10.017,0.21105,0.4403,-0.87269,156.28,#11,-0.66454,-0.56783,-0.48575,236.26,0.64878,-0.76097,0.0019752,-7.204,-0.37076,-0.31383,0.8741,-44.492,#12,0.36801,0.79064,0.48935,-217.74,0.90533,-0.42468,0.0052969,-65.256,0.212,0.44107,-0.87207,224.88
> show #!4 models
> show #!5 models
> show #!6 models
> view matrix models
> #1,1,0,0,-4.3941,0,1,0,-7.9418,0,0,1,6.0657,#2,-0.94633,-0.32197,0.028318,4.587,-0.32271,0.93632,-0.13843,5.6453,0.018056,-0.14014,-0.98997,174.83,#3,0.99669,-0.078661,-0.020319,-5.4815,0.079708,0.99517,0.057241,-13.613,0.015718,-0.058671,0.99815,3.1455,#4,-0.95931,-0.27827,0.047785,5.6557,-0.28225,0.94953,-0.13687,6.5112,-0.0072851,-0.14479,-0.98944,177.69,#5,0.66785,0.56585,-0.48352,-1.5824,-0.64649,0.76292,-0.00011722,6.0961,0.36882,0.31267,0.87533,61.73,#6,-0.36617,-0.79243,0.48783,-1.9173,-0.90733,0.42042,0.001878,11.877,-0.20658,-0.44193,-0.87294,115.9,#7,0.66669,0.566,-0.48495,3.6506,-0.64702,0.76248,0.00042119,45.031,0.37,0.31349,0.87454,-42.286,#8,-0.36294,-0.79291,0.48946,-25.938,-0.90836,0.41817,0.0038627,66.202,-0.20774,-0.4432,-0.87202,209.96,#9,-0.66651,-0.56597,-0.48522,146.62,0.6474,-0.76215,-0.00030618,40.046,-0.36963,-0.31434,0.87439,16.773,#10,0.36937,0.79068,0.48825,-153.85,0.905,-0.42539,0.0042379,-2.5271,0.21105,0.4403,-0.87269,158.24,#11,-0.66454,-0.56783,-0.48575,232.15,0.64878,-0.76097,0.0019752,0.28545,-0.37076,-0.31383,0.8741,-42.524,#12,0.36801,0.79064,0.48935,-221.86,0.90533,-0.42468,0.0052969,-57.766,0.212,0.44107,-0.87207,226.85
> show #!7 models
> show #!8 models
> show #!9 models
> show #!10 models
> show #!11 models
> hide #!11 models
> hide #!1 models
> hide #!2 models
> hide #!3 models
> hide #!4 models
> hide #!5 models
> show #!5 models
> select subtract #4
145590 atoms, 147875 bonds, 153 pseudobonds, 18898 residues, 99 models
selected
> select subtract #3
141030 atoms, 143224 bonds, 150 pseudobonds, 18322 residues, 94 models
selected
> select subtract #2
136395 atoms, 138516 bonds, 139 pseudobonds, 17717 residues, 88 models
selected
> select subtract #1
131760 atoms, 133808 bonds, 128 pseudobonds, 17112 residues, 82 models
selected
> show #!11 models
> show #!12 models
> close #13
> view matrix models
> #5,0.66785,0.56585,-0.48352,17.045,-0.64649,0.76292,-0.00011722,13.643,0.36882,0.31267,0.87533,68.314,#6,-0.36617,-0.79243,0.48783,16.71,-0.90733,0.42042,0.001878,19.424,-0.20658,-0.44193,-0.87294,122.48,#7,0.66669,0.566,-0.48495,22.278,-0.64702,0.76248,0.00042119,52.578,0.37,0.31349,0.87454,-35.702,#8,-0.36294,-0.79291,0.48946,-7.3104,-0.90836,0.41817,0.0038627,73.748,-0.20774,-0.4432,-0.87202,216.54,#9,-0.66651,-0.56597,-0.48522,165.25,0.6474,-0.76215,-0.00030618,47.592,-0.36963,-0.31434,0.87439,23.357,#10,0.36937,0.79068,0.48825,-135.22,0.905,-0.42539,0.0042379,5.0195,0.21105,0.4403,-0.87269,164.83,#11,-0.66454,-0.56783,-0.48575,250.78,0.64878,-0.76097,0.0019752,7.832,-0.37076,-0.31383,0.8741,-35.939,#12,0.36801,0.79064,0.48935,-203.23,0.90533,-0.42468,0.0052969,-50.22,0.212,0.44107,-0.87207,233.43
> hide #!9 models
> hide #!10 models
> hide #!11 models
> hide #!12 models
> select subtract #9
115290 atoms, 117082 bonds, 112 pseudobonds, 14973 residues, 78 models
selected
> select subtract #10
98820 atoms, 100356 bonds, 96 pseudobonds, 12834 residues, 68 models selected
> select subtract #11
82350 atoms, 83630 bonds, 80 pseudobonds, 10695 residues, 66 models selected
> select subtract #12
65880 atoms, 66904 bonds, 64 pseudobonds, 8556 residues, 48 models selected
> view matrix models
> #5,0.66785,0.56585,-0.48352,15.284,-0.64649,0.76292,-0.00011722,20.259,0.36882,0.31267,0.87533,71.257,#6,-0.36617,-0.79243,0.48783,14.949,-0.90733,0.42042,0.001878,26.04,-0.20658,-0.44193,-0.87294,125.43,#7,0.66669,0.566,-0.48495,20.517,-0.64702,0.76248,0.00042119,59.194,0.37,0.31349,0.87454,-32.759,#8,-0.36294,-0.79291,0.48946,-9.0716,-0.90836,0.41817,0.0038627,80.365,-0.20774,-0.4432,-0.87202,219.49
> hide #!8 models
> show #!8 models
> hide #!7 models
> show #!7 models
> hide #!6 models
> show #!6 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> hide #!6 models
> select subtract #7
49410 atoms, 50178 bonds, 48 pseudobonds, 6417 residues, 38 models selected
> select subtract #8
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 28 models selected
> show #!6 models
> show #!5 models
> view matrix models
> #5,0.66785,0.56585,-0.48352,25.715,-0.64649,0.76292,-0.00011722,38.009,0.36882,0.31267,0.87533,38.051,#6,-0.36617,-0.79243,0.48783,25.38,-0.90733,0.42042,0.001878,43.79,-0.20658,-0.44193,-0.87294,92.22
> view matrix models
> #5,0.66785,0.56585,-0.48352,10.047,-0.64649,0.76292,-0.00011722,41.297,0.36882,0.31267,0.87533,29.632,#6,-0.36617,-0.79243,0.48783,9.7122,-0.90733,0.42042,0.001878,47.078,-0.20658,-0.44193,-0.87294,83.802
> view matrix models
> #5,0.66785,0.56585,-0.48352,-0.40267,-0.64649,0.76292,-0.00011722,59.508,0.36882,0.31267,0.87533,9.8744,#6,-0.36617,-0.79243,0.48783,-0.73755,-0.90733,0.42042,0.001878,65.289,-0.20658,-0.44193,-0.87294,64.044
> view matrix models
> #5,0.66785,0.56585,-0.48352,18.509,-0.64649,0.76292,-0.00011722,57.024,0.36882,0.31267,0.87533,22.423,#6,-0.36617,-0.79243,0.48783,18.174,-0.90733,0.42042,0.001878,62.805,-0.20658,-0.44193,-0.87294,76.593
> view matrix models
> #5,0.66785,0.56585,-0.48352,23.598,-0.64649,0.76292,-0.00011722,41.703,0.36882,0.31267,0.87533,-0.13609,#6,-0.36617,-0.79243,0.48783,23.263,-0.90733,0.42042,0.001878,47.484,-0.20658,-0.44193,-0.87294,54.034
> view matrix models
> #5,0.66785,0.56585,-0.48352,22.268,-0.64649,0.76292,-0.00011722,44.501,0.36882,0.31267,0.87533,1.0322,#6,-0.36617,-0.79243,0.48783,21.933,-0.90733,0.42042,0.001878,50.282,-0.20658,-0.44193,-0.87294,55.202
> view matrix models
> #5,0.66785,0.56585,-0.48352,20.395,-0.64649,0.76292,-0.00011722,35.484,0.36882,0.31267,0.87533,-3.4038,#6,-0.36617,-0.79243,0.48783,20.06,-0.90733,0.42042,0.001878,41.265,-0.20658,-0.44193,-0.87294,50.766
> view matrix models
> #5,0.66785,0.56585,-0.48352,20.813,-0.64649,0.76292,-0.00011722,38.381,0.36882,0.31267,0.87533,3.654,#6,-0.36617,-0.79243,0.48783,20.478,-0.90733,0.42042,0.001878,44.161,-0.20658,-0.44193,-0.87294,57.824
> view matrix models
> #5,0.66785,0.56585,-0.48352,19.789,-0.64649,0.76292,-0.00011722,39.039,0.36882,0.31267,0.87533,-0.32102,#6,-0.36617,-0.79243,0.48783,19.454,-0.90733,0.42042,0.001878,44.82,-0.20658,-0.44193,-0.87294,53.849
> view matrix models
> #5,0.66785,0.56585,-0.48352,22.593,-0.64649,0.76292,-0.00011722,37.079,0.36882,0.31267,0.87533,-2.8319,#6,-0.36617,-0.79243,0.48783,22.258,-0.90733,0.42042,0.001878,42.86,-0.20658,-0.44193,-0.87294,51.338
> view matrix models
> #5,0.66785,0.56585,-0.48352,23.462,-0.64649,0.76292,-0.00011722,37.155,0.36882,0.31267,0.87533,-2.447,#6,-0.36617,-0.79243,0.48783,23.127,-0.90733,0.42042,0.001878,42.936,-0.20658,-0.44193,-0.87294,51.723
> view matrix models
> #5,0.66785,0.56585,-0.48352,-18.17,-0.64649,0.76292,-0.00011722,10.76,0.36882,0.31267,0.87533,-34.469,#6,-0.36617,-0.79243,0.48783,-18.505,-0.90733,0.42042,0.001878,16.541,-0.20658,-0.44193,-0.87294,19.701
> undo
> color sel bychain
> rainbow sel
> view matrix models
> #5,0.66785,0.56585,-0.48352,6.8999,-0.64649,0.76292,-0.00011722,34.962,0.36882,0.31267,0.87533,27.027,#6,-0.36617,-0.79243,0.48783,6.5651,-0.90733,0.42042,0.001878,40.743,-0.20658,-0.44193,-0.87294,81.197
> select add #7
49410 atoms, 50178 bonds, 48 pseudobonds, 6417 residues, 22 models selected
> select add #8
65880 atoms, 66904 bonds, 64 pseudobonds, 8556 residues, 32 models selected
> show #!9 models
> show #!10 models
> show #!11 models
> show #!12 models
> select add #9
82350 atoms, 83630 bonds, 80 pseudobonds, 10695 residues, 42 models selected
> select add #10
98820 atoms, 100356 bonds, 96 pseudobonds, 12834 residues, 52 models selected
> select add #11
115290 atoms, 117082 bonds, 112 pseudobonds, 14973 residues, 54 models
selected
> select add #12
131760 atoms, 133808 bonds, 128 pseudobonds, 17112 residues, 72 models
selected
> rainbow sel
> view matrix models
> #5,0.66785,0.56585,-0.48352,2.9406,-0.64649,0.76292,-0.00011722,34.534,0.36882,0.31267,0.87533,22.032,#6,-0.36617,-0.79243,0.48783,2.6057,-0.90733,0.42042,0.001878,40.315,-0.20658,-0.44193,-0.87294,76.201,#7,0.66669,0.566,-0.48495,16.558,-0.64702,0.76248,0.00042119,58.765,0.37,0.31349,0.87454,-37.755,#8,-0.36294,-0.79291,0.48946,-13.031,-0.90836,0.41817,0.0038627,79.936,-0.20774,-0.4432,-0.87202,214.49,#9,-0.66651,-0.56597,-0.48522,161.29,0.6474,-0.76215,-0.00030618,47.164,-0.36963,-0.31434,0.87439,18.362,#10,0.36937,0.79068,0.48825,-139.18,0.905,-0.42539,0.0042379,4.5908,0.21105,0.4403,-0.87269,159.83,#11,-0.66454,-0.56783,-0.48575,246.82,0.64878,-0.76097,0.0019752,7.4033,-0.37076,-0.31383,0.8741,-40.935,#12,0.36801,0.79064,0.48935,-207.19,0.90533,-0.42468,0.0052969,-50.648,0.212,0.44107,-0.87207,228.44
> view matrix models
> #5,0.66785,0.56585,-0.48352,19.178,-0.64649,0.76292,-0.00011722,37.16,0.36882,0.31267,0.87533,42.678,#6,-0.36617,-0.79243,0.48783,18.843,-0.90733,0.42042,0.001878,42.941,-0.20658,-0.44193,-0.87294,96.848,#7,0.66669,0.566,-0.48495,32.795,-0.64702,0.76248,0.00042119,61.392,0.37,0.31349,0.87454,-17.108,#8,-0.36294,-0.79291,0.48946,3.2064,-0.90836,0.41817,0.0038627,82.563,-0.20774,-0.4432,-0.87202,235.14,#9,-0.66651,-0.56597,-0.48522,177.53,0.6474,-0.76215,-0.00030618,49.79,-0.36963,-0.31434,0.87439,39.009,#10,0.36937,0.79068,0.48825,-122.94,0.905,-0.42539,0.0042379,7.2173,0.21105,0.4403,-0.87269,180.48,#11,-0.66454,-0.56783,-0.48575,263.06,0.64878,-0.76097,0.0019752,10.03,-0.37076,-0.31383,0.8741,-20.288,#12,0.36801,0.79064,0.48935,-190.95,0.90533,-0.42468,0.0052969,-48.022,0.212,0.44107,-0.87207,249.08
> view matrix models
> #5,0.51491,0.33744,-0.78803,30.335,-0.65493,0.74798,-0.10765,39.255,0.55311,0.57154,0.60615,41.656,#6,-0.18551,-0.58314,0.7909,8.2297,-0.89477,0.43293,0.10932,39.468,-0.40616,-0.6874,-0.6021,91.447,#7,0.51343,0.33728,-0.78907,64.559,-0.65561,0.74746,-0.10709,69.952,0.55368,0.57231,0.60489,-5.6035,#8,-0.18202,-0.58291,0.79189,-63.615,-0.89556,0.4308,0.11126,64.168,-0.406,-0.68893,-0.60045,214.6,#9,-0.51344,-0.33695,-0.78921,175.86,0.65597,-0.74705,-0.10781,58.187,-0.55325,-0.57305,0.60459,102.59,#10,0.18686,0.58256,0.79102,-151.91,0.89213,-0.43777,0.11166,-9.9418,0.41133,0.68483,-0.60152,108.35,#11,-0.5113,-0.33894,-0.78974,280.57,0.65753,-0.746,-0.10553,27.947,-0.55338,-0.57324,0.60429,79.506,#12,0.18521,0.58216,0.7917,-237.1,0.89231,-0.43714,0.11269,-74.424,0.41169,0.68556,-0.60043,139.49
> hide #!6 models
> hide #!7 models
> hide #!8 models
> hide #!9 models
> hide #!10 models
> hide #!11 models
> hide #!12 models
> view matrix models
> #5,0.51491,0.33744,-0.78803,27.501,-0.65493,0.74798,-0.10765,34.533,0.55311,0.57154,0.60615,37.265,#6,-0.18551,-0.58314,0.7909,5.3959,-0.89477,0.43293,0.10932,34.746,-0.40616,-0.6874,-0.6021,87.057,#7,0.51343,0.33728,-0.78907,61.725,-0.65561,0.74746,-0.10709,65.23,0.55368,0.57231,0.60489,-9.9937,#8,-0.18202,-0.58291,0.79189,-66.449,-0.89556,0.4308,0.11126,59.446,-0.406,-0.68893,-0.60045,210.21,#9,-0.51344,-0.33695,-0.78921,173.02,0.65597,-0.74705,-0.10781,53.465,-0.55325,-0.57305,0.60459,98.2,#10,0.18686,0.58256,0.79102,-154.75,0.89213,-0.43777,0.11166,-14.664,0.41133,0.68483,-0.60152,103.96,#11,-0.5113,-0.33894,-0.78974,277.73,0.65753,-0.746,-0.10553,23.225,-0.55338,-0.57324,0.60429,75.115,#12,0.18521,0.58216,0.7917,-239.93,0.89231,-0.43714,0.11269,-79.146,0.41169,0.68556,-0.60043,135.1
> view matrix models
> #5,0.51491,0.33744,-0.78803,2.0442,-0.65493,0.74798,-0.10765,37.742,0.55311,0.57154,0.60615,6.2478,#6,-0.18551,-0.58314,0.7909,-20.061,-0.89477,0.43293,0.10932,37.956,-0.40616,-0.6874,-0.6021,56.039,#7,0.51343,0.33728,-0.78907,36.268,-0.65561,0.74746,-0.10709,68.44,0.55368,0.57231,0.60489,-41.011,#8,-0.18202,-0.58291,0.79189,-91.906,-0.89556,0.4308,0.11126,62.656,-0.406,-0.68893,-0.60045,179.19,#9,-0.51344,-0.33695,-0.78921,147.57,0.65597,-0.74705,-0.10781,56.674,-0.55325,-0.57305,0.60459,67.182,#10,0.18686,0.58256,0.79102,-180.2,0.89213,-0.43777,0.11166,-11.454,0.41133,0.68483,-0.60152,72.944,#11,-0.5113,-0.33894,-0.78974,252.28,0.65753,-0.746,-0.10553,26.435,-0.55338,-0.57324,0.60429,44.098,#12,0.18521,0.58216,0.7917,-265.39,0.89231,-0.43714,0.11269,-75.936,0.41169,0.68556,-0.60043,104.08
> show #!6 models
> hide #!5 models
> hide #!6 models
> show #!7 models
> hide #!7 models
> show #!8 models
> view matrix models
> #5,0.51491,0.33744,-0.78803,-4.9245,-0.65493,0.74798,-0.10765,32.941,0.55311,0.57154,0.60615,3.8773,#6,-0.18551,-0.58314,0.7909,-27.03,-0.89477,0.43293,0.10932,33.155,-0.40616,-0.6874,-0.6021,53.669,#7,0.51343,0.33728,-0.78907,29.299,-0.65561,0.74746,-0.10709,63.639,0.55368,0.57231,0.60489,-43.382,#8,-0.18202,-0.58291,0.79189,-98.875,-0.89556,0.4308,0.11126,57.855,-0.406,-0.68893,-0.60045,176.82,#9,-0.51344,-0.33695,-0.78921,140.6,0.65597,-0.74705,-0.10781,51.874,-0.55325,-0.57305,0.60459,64.812,#10,0.18686,0.58256,0.79102,-187.17,0.89213,-0.43777,0.11166,-16.255,0.41133,0.68483,-0.60152,70.574,#11,-0.5113,-0.33894,-0.78974,245.31,0.65753,-0.746,-0.10553,21.634,-0.55338,-0.57324,0.60429,41.727,#12,0.18521,0.58216,0.7917,-272.36,0.89231,-0.43714,0.11269,-80.737,0.41169,0.68556,-0.60043,101.71
> view matrix models
> #5,0.51491,0.33744,-0.78803,16.143,-0.65493,0.74798,-0.10765,22.897,0.55311,0.57154,0.60615,30.35,#6,-0.18551,-0.58314,0.7909,-5.963,-0.89477,0.43293,0.10932,23.11,-0.40616,-0.6874,-0.6021,80.142,#7,0.51343,0.33728,-0.78907,50.366,-0.65561,0.74746,-0.10709,53.594,0.55368,0.57231,0.60489,-16.909,#8,-0.18202,-0.58291,0.79189,-77.808,-0.89556,0.4308,0.11126,47.81,-0.406,-0.68893,-0.60045,203.29,#9,-0.51344,-0.33695,-0.78921,161.66,0.65597,-0.74705,-0.10781,41.829,-0.55325,-0.57305,0.60459,91.285,#10,0.18686,0.58256,0.79102,-166.1,0.89213,-0.43777,0.11166,-26.3,0.41133,0.68483,-0.60152,97.047,#11,-0.5113,-0.33894,-0.78974,266.38,0.65753,-0.746,-0.10553,11.589,-0.55338,-0.57324,0.60429,68.2,#12,0.18521,0.58216,0.7917,-251.29,0.89231,-0.43714,0.11269,-90.782,0.41169,0.68556,-0.60043,128.19
> view matrix models
> #5,0.51491,0.33744,-0.78803,1.8081,-0.65493,0.74798,-0.10765,33.667,0.55311,0.57154,0.60615,13.119,#6,-0.18551,-0.58314,0.7909,-20.297,-0.89477,0.43293,0.10932,33.881,-0.40616,-0.6874,-0.6021,62.911,#7,0.51343,0.33728,-0.78907,36.032,-0.65561,0.74746,-0.10709,64.365,0.55368,0.57231,0.60489,-34.14,#8,-0.18202,-0.58291,0.79189,-92.142,-0.89556,0.4308,0.11126,58.581,-0.406,-0.68893,-0.60045,186.06,#9,-0.51344,-0.33695,-0.78921,147.33,0.65597,-0.74705,-0.10781,52.6,-0.55325,-0.57305,0.60459,74.054,#10,0.18686,0.58256,0.79102,-180.44,0.89213,-0.43777,0.11166,-15.529,0.41133,0.68483,-0.60152,79.816,#11,-0.5113,-0.33894,-0.78974,252.04,0.65753,-0.746,-0.10553,22.36,-0.55338,-0.57324,0.60429,50.969,#12,0.18521,0.58216,0.7917,-265.62,0.89231,-0.43714,0.11269,-80.011,0.41169,0.68556,-0.60043,110.96
Drag select of 27 atoms, 504 residues
Drag select of 5 residues
Drag select of 45 atoms, 917 residues
> view matrix models
> #5,0.51491,0.33744,-0.78803,24.824,-0.65493,0.74798,-0.10765,7.5441,0.55311,0.57154,0.60615,39.033,#6,-0.18551,-0.58314,0.7909,2.7186,-0.89477,0.43293,0.10932,7.7576,-0.40616,-0.6874,-0.6021,88.824,#7,0.51343,0.33728,-0.78907,59.048,-0.65561,0.74746,-0.10709,38.241,0.55368,0.57231,0.60489,-8.2264,#8,-0.18202,-0.58291,0.79189,-69.126,-0.89556,0.4308,0.11126,32.458,-0.406,-0.68893,-0.60045,211.98,#9,-0.51344,-0.33695,-0.78921,170.35,0.65597,-0.74705,-0.10781,26.476,-0.55325,-0.57305,0.60459,99.967,#10,0.18686,0.58256,0.79102,-157.42,0.89213,-0.43777,0.11166,-41.652,0.41133,0.68483,-0.60152,105.73,#11,-0.5113,-0.33894,-0.78974,275.06,0.65753,-0.746,-0.10553,-3.763,-0.55338,-0.57324,0.60429,76.883,#12,0.18521,0.58216,0.7917,-242.61,0.89231,-0.43714,0.11269,-106.13,0.41169,0.68556,-0.60043,136.87
Drag select of 12 atoms, 300 residues
Drag select of 2 atoms, 135 residues
> select add #8/F:273
120231 atoms, 133808 bonds, 128 pseudobonds, 15614 residues, 80 models
selected
> select subtract #8/F:274
120226 atoms, 133802 bonds, 128 pseudobonds, 15613 residues, 80 models
selected
Drag select of 8 residues
> select subtract #8/F:278
120197 atoms, 133792 bonds, 128 pseudobonds, 15610 residues, 80 models
selected
> select subtract #8/F:276
120191 atoms, 133785 bonds, 128 pseudobonds, 15609 residues, 80 models
selected
> select subtract #8/F:274
120186 atoms, 133785 bonds, 128 pseudobonds, 15608 residues, 80 models
selected
> select add #8/E:217
120193 atoms, 133785 bonds, 128 pseudobonds, 15609 residues, 80 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,38.257,-0.65493,0.74798,-0.10765,-14.611,0.55311,0.57154,0.60615,52.784,#6,-0.18551,-0.58314,0.7909,16.151,-0.89477,0.43293,0.10932,-14.397,-0.40616,-0.6874,-0.6021,102.58,#7,0.51343,0.33728,-0.78907,72.48,-0.65561,0.74746,-0.10709,16.087,0.55368,0.57231,0.60489,5.5249,#8,-0.18202,-0.58291,0.79189,-55.694,-0.89556,0.4308,0.11126,10.303,-0.406,-0.68893,-0.60045,225.73,#9,-0.51344,-0.33695,-0.78921,183.78,0.65597,-0.74705,-0.10781,4.3214,-0.55325,-0.57305,0.60459,113.72,#10,0.18686,0.58256,0.79102,-143.99,0.89213,-0.43777,0.11166,-63.807,0.41133,0.68483,-0.60152,119.48,#11,-0.5113,-0.33894,-0.78974,288.49,0.65753,-0.746,-0.10553,-25.918,-0.55338,-0.57324,0.60429,90.634,#12,0.18521,0.58216,0.7917,-229.17,0.89231,-0.43714,0.11269,-128.29,0.41169,0.68556,-0.60043,150.62
> select subtract #8/E:247
120185 atoms, 133776 bonds, 128 pseudobonds, 15608 residues, 80 models
selected
> select subtract #8/E:263
120176 atoms, 133766 bonds, 128 pseudobonds, 15607 residues, 80 models
selected
> select subtract #8/F:263
120167 atoms, 133756 bonds, 128 pseudobonds, 15606 residues, 80 models
selected
> select subtract #8/F:261
120156 atoms, 133743 bonds, 128 pseudobonds, 15605 residues, 80 models
selected
> select subtract #8/F:264
120148 atoms, 133735 bonds, 128 pseudobonds, 15604 residues, 80 models
selected
> select subtract #8/E:243
120139 atoms, 133725 bonds, 128 pseudobonds, 15603 residues, 80 models
selected
> select subtract #8/E:210
120131 atoms, 133716 bonds, 128 pseudobonds, 15602 residues, 80 models
selected
> select subtract #8/E:209
120124 atoms, 133709 bonds, 128 pseudobonds, 15601 residues, 80 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,38.77,-0.65493,0.74798,-0.10765,-13.237,0.55311,0.57154,0.60615,53.751,#6,-0.18551,-0.58314,0.7909,16.665,-0.89477,0.43293,0.10932,-13.023,-0.40616,-0.6874,-0.6021,103.54,#7,0.51343,0.33728,-0.78907,72.994,-0.65561,0.74746,-0.10709,17.46,0.55368,0.57231,0.60489,6.4918,#8,-0.18202,-0.58291,0.79189,-55.18,-0.89556,0.4308,0.11126,11.677,-0.406,-0.68893,-0.60045,226.7,#9,-0.51344,-0.33695,-0.78921,184.29,0.65597,-0.74705,-0.10781,5.6952,-0.55325,-0.57305,0.60459,114.69,#10,0.18686,0.58256,0.79102,-143.48,0.89213,-0.43777,0.11166,-62.433,0.41133,0.68483,-0.60152,120.45,#11,-0.5113,-0.33894,-0.78974,289,0.65753,-0.746,-0.10553,-24.544,-0.55338,-0.57324,0.60429,91.601,#12,0.18521,0.58216,0.7917,-228.66,0.89231,-0.43714,0.11269,-126.92,0.41169,0.68556,-0.60043,151.59
> select subtract #8/E:258
120119 atoms, 133703 bonds, 128 pseudobonds, 15600 residues, 80 models
selected
> select subtract #8/E:279
120110 atoms, 133693 bonds, 128 pseudobonds, 15599 residues, 80 models
selected
> select subtract #8/E:272
120102 atoms, 133684 bonds, 128 pseudobonds, 15598 residues, 80 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,42.133,-0.65493,0.74798,-0.10765,-9.2625,0.55311,0.57154,0.60615,53.716,#6,-0.18551,-0.58314,0.7909,20.028,-0.89477,0.43293,0.10932,-9.049,-0.40616,-0.6874,-0.6021,103.51,#7,0.51343,0.33728,-0.78907,76.357,-0.65561,0.74746,-0.10709,21.435,0.55368,0.57231,0.60489,6.4569,#8,-0.18202,-0.58291,0.79189,-51.817,-0.89556,0.4308,0.11126,15.651,-0.406,-0.68893,-0.60045,226.66,#9,-0.51344,-0.33695,-0.78921,187.66,0.65597,-0.74705,-0.10781,9.6697,-0.55325,-0.57305,0.60459,114.65,#10,0.18686,0.58256,0.79102,-140.11,0.89213,-0.43777,0.11166,-58.459,0.41133,0.68483,-0.60152,120.41,#11,-0.5113,-0.33894,-0.78974,292.37,0.65753,-0.746,-0.10553,-20.57,-0.55338,-0.57324,0.60429,91.566,#12,0.18521,0.58216,0.7917,-225.3,0.89231,-0.43714,0.11269,-122.94,0.41169,0.68556,-0.60043,151.55
> view matrix models
> #5,0.51491,0.33744,-0.78803,-18.104,-0.65493,0.74798,-0.10765,3.5703,0.55311,0.57154,0.60615,98.386,#6,-0.18551,-0.58314,0.7909,-40.21,-0.89477,0.43293,0.10932,3.7837,-0.40616,-0.6874,-0.6021,148.18,#7,0.51343,0.33728,-0.78907,16.119,-0.65561,0.74746,-0.10709,34.268,0.55368,0.57231,0.60489,51.127,#8,-0.18202,-0.58291,0.79189,-112.05,-0.89556,0.4308,0.11126,28.484,-0.406,-0.68893,-0.60045,271.33,#9,-0.51344,-0.33695,-0.78921,127.42,0.65597,-0.74705,-0.10781,22.502,-0.55325,-0.57305,0.60459,159.32,#10,0.18686,0.58256,0.79102,-200.35,0.89213,-0.43777,0.11166,-45.626,0.41133,0.68483,-0.60152,165.08,#11,-0.5113,-0.33894,-0.78974,232.13,0.65753,-0.746,-0.10553,-7.7368,-0.55338,-0.57324,0.60429,136.24,#12,0.18521,0.58216,0.7917,-285.54,0.89231,-0.43714,0.11269,-110.11,0.41169,0.68556,-0.60043,196.22
> view matrix models
> #5,0.51491,0.33744,-0.78803,-20.18,-0.65493,0.74798,-0.10765,4.3978,0.55311,0.57154,0.60615,99.724,#6,-0.18551,-0.58314,0.7909,-42.285,-0.89477,0.43293,0.10932,4.6113,-0.40616,-0.6874,-0.6021,149.51,#7,0.51343,0.33728,-0.78907,14.044,-0.65561,0.74746,-0.10709,35.095,0.55368,0.57231,0.60489,52.464,#8,-0.18202,-0.58291,0.79189,-114.13,-0.89556,0.4308,0.11126,29.312,-0.406,-0.68893,-0.60045,272.67,#9,-0.51344,-0.33695,-0.78921,125.34,0.65597,-0.74705,-0.10781,23.33,-0.55325,-0.57305,0.60459,160.66,#10,0.18686,0.58256,0.79102,-202.43,0.89213,-0.43777,0.11166,-44.799,0.41133,0.68483,-0.60152,166.42,#11,-0.5113,-0.33894,-0.78974,230.05,0.65753,-0.746,-0.10553,-6.9093,-0.55338,-0.57324,0.60429,137.57,#12,0.18521,0.58216,0.7917,-287.61,0.89231,-0.43714,0.11269,-109.28,0.41169,0.68556,-0.60043,197.56
> select subtract #8/G:264
120094 atoms, 133675 bonds, 128 pseudobonds, 15597 residues, 80 models
selected
> select subtract #8/G:260
120085 atoms, 133665 bonds, 128 pseudobonds, 15596 residues, 80 models
selected
> select subtract #8/G:258
120079 atoms, 133658 bonds, 128 pseudobonds, 15595 residues, 80 models
selected
> select subtract #8/G:256
120073 atoms, 133651 bonds, 128 pseudobonds, 15594 residues, 80 models
selected
> select subtract #8/G:252
120063 atoms, 133639 bonds, 128 pseudobonds, 15593 residues, 80 models
selected
> select subtract #8/G:250
120053 atoms, 133627 bonds, 128 pseudobonds, 15592 residues, 80 models
selected
> select subtract #8/G:251
120044 atoms, 133619 bonds, 128 pseudobonds, 15591 residues, 80 models
selected
> select subtract #8/G:249
120036 atoms, 133611 bonds, 128 pseudobonds, 15590 residues, 80 models
selected
> select subtract #8/G:248
120029 atoms, 133604 bonds, 128 pseudobonds, 15589 residues, 80 models
selected
> select subtract #8/G:247
120021 atoms, 133596 bonds, 128 pseudobonds, 15588 residues, 80 models
selected
> select subtract #8/G:246
120013 atoms, 133588 bonds, 128 pseudobonds, 15587 residues, 80 models
selected
> select subtract #8/G:245
120006 atoms, 133581 bonds, 128 pseudobonds, 15586 residues, 80 models
selected
> select subtract #8/G:242
119995 atoms, 133568 bonds, 128 pseudobonds, 15585 residues, 80 models
selected
> select subtract #8/G:243
119986 atoms, 133559 bonds, 128 pseudobonds, 15584 residues, 80 models
selected
> select subtract #8/H:273
119977 atoms, 133549 bonds, 128 pseudobonds, 15583 residues, 80 models
selected
> select subtract #8/H:280
119969 atoms, 133540 bonds, 128 pseudobonds, 15582 residues, 80 models
selected
> select subtract #8/H:281
119961 atoms, 133532 bonds, 128 pseudobonds, 15581 residues, 80 models
selected
> select subtract #8/H:285
119950 atoms, 133520 bonds, 128 pseudobonds, 15580 residues, 80 models
selected
> select subtract #8/H:282
119939 atoms, 133509 bonds, 128 pseudobonds, 15579 residues, 80 models
selected
> select subtract #8/H:283
119925 atoms, 133493 bonds, 128 pseudobonds, 15578 residues, 80 models
selected
> select subtract #8/H:290
119921 atoms, 133488 bonds, 128 pseudobonds, 15577 residues, 80 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,-14.58,-0.65493,0.74798,-0.10765,-1.252,0.55311,0.57154,0.60615,97.902,#6,-0.18551,-0.58314,0.7909,-36.685,-0.89477,0.43293,0.10932,-1.0386,-0.40616,-0.6874,-0.6021,147.69,#7,0.51343,0.33728,-0.78907,19.644,-0.65561,0.74746,-0.10709,29.445,0.55368,0.57231,0.60489,50.642,#8,-0.18202,-0.58291,0.79189,-108.53,-0.89556,0.4308,0.11126,23.662,-0.406,-0.68893,-0.60045,270.85,#9,-0.51344,-0.33695,-0.78921,130.94,0.65597,-0.74705,-0.10781,17.68,-0.55325,-0.57305,0.60459,158.84,#10,0.18686,0.58256,0.79102,-196.83,0.89213,-0.43777,0.11166,-50.448,0.41133,0.68483,-0.60152,164.6,#11,-0.5113,-0.33894,-0.78974,235.65,0.65753,-0.746,-0.10553,-12.559,-0.55338,-0.57324,0.60429,135.75,#12,0.18521,0.58216,0.7917,-282.01,0.89231,-0.43714,0.11269,-114.93,0.41169,0.68556,-0.60043,195.74
> select subtract #8/E:35
119913 atoms, 133479 bonds, 128 pseudobonds, 15576 residues, 80 models
selected
> select subtract #8/E:31
119905 atoms, 133470 bonds, 128 pseudobonds, 15575 residues, 80 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,-4.4561,-0.65493,0.74798,-0.10765,-7.8346,0.55311,0.57154,0.60615,92.709,#6,-0.18551,-0.58314,0.7909,-26.562,-0.89477,0.43293,0.10932,-7.6211,-0.40616,-0.6874,-0.6021,142.5,#7,0.51343,0.33728,-0.78907,29.767,-0.65561,0.74746,-0.10709,22.863,0.55368,0.57231,0.60489,45.45,#8,-0.18202,-0.58291,0.79189,-98.406,-0.89556,0.4308,0.11126,17.079,-0.406,-0.68893,-0.60045,265.65,#9,-0.51344,-0.33695,-0.78921,141.07,0.65597,-0.74705,-0.10781,11.098,-0.55325,-0.57305,0.60459,153.64,#10,0.18686,0.58256,0.79102,-186.7,0.89213,-0.43777,0.11166,-57.031,0.41133,0.68483,-0.60152,159.41,#11,-0.5113,-0.33894,-0.78974,245.78,0.65753,-0.746,-0.10553,-19.142,-0.55338,-0.57324,0.60429,130.56,#12,0.18521,0.58216,0.7917,-271.89,0.89231,-0.43714,0.11269,-121.51,0.41169,0.68556,-0.60043,190.55
> select subtract #8/E:27
119896 atoms, 133460 bonds, 128 pseudobonds, 15574 residues, 80 models
selected
> select subtract #8/E:23
119885 atoms, 133448 bonds, 128 pseudobonds, 15573 residues, 80 models
selected
> select subtract #8/E:22
119873 atoms, 133435 bonds, 128 pseudobonds, 15572 residues, 80 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,-4.6912,-0.65493,0.74798,-0.10765,-7.6568,0.55311,0.57154,0.60615,89.825,#6,-0.18551,-0.58314,0.7909,-26.797,-0.89477,0.43293,0.10932,-7.4434,-0.40616,-0.6874,-0.6021,139.62,#7,0.51343,0.33728,-0.78907,29.532,-0.65561,0.74746,-0.10709,23.041,0.55368,0.57231,0.60489,42.566,#8,-0.18202,-0.58291,0.79189,-98.642,-0.89556,0.4308,0.11126,17.257,-0.406,-0.68893,-0.60045,262.77,#9,-0.51344,-0.33695,-0.78921,140.83,0.65597,-0.74705,-0.10781,11.275,-0.55325,-0.57305,0.60459,150.76,#10,0.18686,0.58256,0.79102,-186.94,0.89213,-0.43777,0.11166,-56.853,0.41133,0.68483,-0.60152,156.52,#11,-0.5113,-0.33894,-0.78974,245.54,0.65753,-0.746,-0.10553,-18.964,-0.55338,-0.57324,0.60429,127.67,#12,0.18521,0.58216,0.7917,-272.12,0.89231,-0.43714,0.11269,-121.33,0.41169,0.68556,-0.60043,187.66
> view matrix models
> #5,0.51491,0.33744,-0.78803,-1.976,-0.65493,0.74798,-0.10765,-9.3735,0.55311,0.57154,0.60615,88.723,#6,-0.18551,-0.58314,0.7909,-24.082,-0.89477,0.43293,0.10932,-9.1601,-0.40616,-0.6874,-0.6021,138.51,#7,0.51343,0.33728,-0.78907,32.248,-0.65561,0.74746,-0.10709,21.324,0.55368,0.57231,0.60489,41.464,#8,-0.18202,-0.58291,0.79189,-95.926,-0.89556,0.4308,0.11126,15.54,-0.406,-0.68893,-0.60045,261.67,#9,-0.51344,-0.33695,-0.78921,143.55,0.65597,-0.74705,-0.10781,9.5587,-0.55325,-0.57305,0.60459,149.66,#10,0.18686,0.58256,0.79102,-184.22,0.89213,-0.43777,0.11166,-58.57,0.41133,0.68483,-0.60152,155.42,#11,-0.5113,-0.33894,-0.78974,248.26,0.65753,-0.746,-0.10553,-20.681,-0.55338,-0.57324,0.60429,126.57,#12,0.18521,0.58216,0.7917,-269.41,0.89231,-0.43714,0.11269,-123.05,0.41169,0.68556,-0.60043,186.56
> select subtract #8/F:74
119861 atoms, 133421 bonds, 128 pseudobonds, 15571 residues, 80 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,-5.3469,-0.65493,0.74798,-0.10765,-7.1164,0.55311,0.57154,0.60615,90.6,#6,-0.18551,-0.58314,0.7909,-27.452,-0.89477,0.43293,0.10932,-6.9029,-0.40616,-0.6874,-0.6021,140.39,#7,0.51343,0.33728,-0.78907,28.877,-0.65561,0.74746,-0.10709,23.581,0.55368,0.57231,0.60489,43.341,#8,-0.18202,-0.58291,0.79189,-99.297,-0.89556,0.4308,0.11126,17.797,-0.406,-0.68893,-0.60045,263.54,#9,-0.51344,-0.33695,-0.78921,140.18,0.65597,-0.74705,-0.10781,11.816,-0.55325,-0.57305,0.60459,151.53,#10,0.18686,0.58256,0.79102,-187.59,0.89213,-0.43777,0.11166,-56.313,0.41133,0.68483,-0.60152,157.3,#11,-0.5113,-0.33894,-0.78974,244.89,0.65753,-0.746,-0.10553,-18.424,-0.55338,-0.57324,0.60429,128.45,#12,0.18521,0.58216,0.7917,-272.78,0.89231,-0.43714,0.11269,-120.79,0.41169,0.68556,-0.60043,188.44
> select subtract #8/E:248
119854 atoms, 133414 bonds, 128 pseudobonds, 15570 residues, 80 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,-19.906,-0.65493,0.74798,-0.10765,-14.381,0.55311,0.57154,0.60615,110.29,#6,-0.18551,-0.58314,0.7909,-42.012,-0.89477,0.43293,0.10932,-14.167,-0.40616,-0.6874,-0.6021,160.08,#7,0.51343,0.33728,-0.78907,14.317,-0.65561,0.74746,-0.10709,16.317,0.55368,0.57231,0.60489,63.029,#8,-0.18202,-0.58291,0.79189,-113.86,-0.89556,0.4308,0.11126,10.533,-0.406,-0.68893,-0.60045,283.23,#9,-0.51344,-0.33695,-0.78921,125.62,0.65597,-0.74705,-0.10781,4.5515,-0.55325,-0.57305,0.60459,171.22,#10,0.18686,0.58256,0.79102,-202.15,0.89213,-0.43777,0.11166,-63.577,0.41133,0.68483,-0.60152,176.98,#11,-0.5113,-0.33894,-0.78974,230.33,0.65753,-0.746,-0.10553,-25.688,-0.55338,-0.57324,0.60429,148.14,#12,0.18521,0.58216,0.7917,-287.34,0.89231,-0.43714,0.11269,-128.06,0.41169,0.68556,-0.60043,208.12
> view matrix models
> #5,0.51491,0.33744,-0.78803,-1.3457,-0.65493,0.74798,-0.10765,-9.4767,0.55311,0.57154,0.60615,103.96,#6,-0.18551,-0.58314,0.7909,-23.451,-0.89477,0.43293,0.10932,-9.2633,-0.40616,-0.6874,-0.6021,153.75,#7,0.51343,0.33728,-0.78907,32.878,-0.65561,0.74746,-0.10709,21.221,0.55368,0.57231,0.60489,56.701,#8,-0.18202,-0.58291,0.79189,-95.296,-0.89556,0.4308,0.11126,15.437,-0.406,-0.68893,-0.60045,276.9,#9,-0.51344,-0.33695,-0.78921,144.18,0.65597,-0.74705,-0.10781,9.4555,-0.55325,-0.57305,0.60459,164.89,#10,0.18686,0.58256,0.79102,-183.59,0.89213,-0.43777,0.11166,-58.673,0.41133,0.68483,-0.60152,170.66,#11,-0.5113,-0.33894,-0.78974,248.89,0.65753,-0.746,-0.10553,-20.784,-0.55338,-0.57324,0.60429,141.81,#12,0.18521,0.58216,0.7917,-268.78,0.89231,-0.43714,0.11269,-123.15,0.41169,0.68556,-0.60043,201.8
> view matrix models
> #5,0.51491,0.33744,-0.78803,18.861,-0.65493,0.74798,-0.10765,-2.1768,0.55311,0.57154,0.60615,88.623,#6,-0.18551,-0.58314,0.7909,-3.2445,-0.89477,0.43293,0.10932,-1.9633,-0.40616,-0.6874,-0.6021,138.41,#7,0.51343,0.33728,-0.78907,53.085,-0.65561,0.74746,-0.10709,28.521,0.55368,0.57231,0.60489,41.363,#8,-0.18202,-0.58291,0.79189,-75.089,-0.89556,0.4308,0.11126,22.737,-0.406,-0.68893,-0.60045,261.57,#9,-0.51344,-0.33695,-0.78921,164.38,0.65597,-0.74705,-0.10781,16.755,-0.55325,-0.57305,0.60459,149.56,#10,0.18686,0.58256,0.79102,-163.39,0.89213,-0.43777,0.11166,-51.373,0.41133,0.68483,-0.60152,155.32,#11,-0.5113,-0.33894,-0.78974,269.09,0.65753,-0.746,-0.10553,-13.484,-0.55338,-0.57324,0.60429,126.47,#12,0.18521,0.58216,0.7917,-248.57,0.89231,-0.43714,0.11269,-115.85,0.41169,0.68556,-0.60043,186.46
> view matrix models
> #5,0.51491,0.33744,-0.78803,57.926,-0.65493,0.74798,-0.10765,14.781,0.55311,0.57154,0.60615,46.715,#6,-0.18551,-0.58314,0.7909,35.821,-0.89477,0.43293,0.10932,14.994,-0.40616,-0.6874,-0.6021,96.506,#7,0.51343,0.33728,-0.78907,92.15,-0.65561,0.74746,-0.10709,45.478,0.55368,0.57231,0.60489,-0.54448,#8,-0.18202,-0.58291,0.79189,-36.024,-0.89556,0.4308,0.11126,39.694,-0.406,-0.68893,-0.60045,219.66,#9,-0.51344,-0.33695,-0.78921,203.45,0.65597,-0.74705,-0.10781,33.713,-0.55325,-0.57305,0.60459,107.65,#10,0.18686,0.58256,0.79102,-124.32,0.89213,-0.43777,0.11166,-34.416,0.41133,0.68483,-0.60152,113.41,#11,-0.5113,-0.33894,-0.78974,308.16,0.65753,-0.746,-0.10553,3.4735,-0.55338,-0.57324,0.60429,84.565,#12,0.18521,0.58216,0.7917,-209.5,0.89231,-0.43714,0.11269,-98.898,0.41169,0.68556,-0.60043,144.55
> view matrix models
> #5,0.51491,0.33744,-0.78803,27.575,-0.65493,0.74798,-0.10765,3.7844,0.55311,0.57154,0.60615,69.889,#6,-0.18551,-0.58314,0.7909,5.4699,-0.89477,0.43293,0.10932,3.9978,-0.40616,-0.6874,-0.6021,119.68,#7,0.51343,0.33728,-0.78907,61.799,-0.65561,0.74746,-0.10709,34.482,0.55368,0.57231,0.60489,22.629,#8,-0.18202,-0.58291,0.79189,-66.375,-0.89556,0.4308,0.11126,28.698,-0.406,-0.68893,-0.60045,242.83,#9,-0.51344,-0.33695,-0.78921,173.1,0.65597,-0.74705,-0.10781,22.717,-0.55325,-0.57305,0.60459,130.82,#10,0.18686,0.58256,0.79102,-154.67,0.89213,-0.43777,0.11166,-45.412,0.41133,0.68483,-0.60152,136.59,#11,-0.5113,-0.33894,-0.78974,277.81,0.65753,-0.746,-0.10553,-7.5228,-0.55338,-0.57324,0.60429,107.74,#12,0.18521,0.58216,0.7917,-239.86,0.89231,-0.43714,0.11269,-109.89,0.41169,0.68556,-0.60043,167.73
> view matrix models
> #5,0.51491,0.33744,-0.78803,17.755,-0.65493,0.74798,-0.10765,7.1992,0.55311,0.57154,0.60615,47.345,#6,-0.18551,-0.58314,0.7909,-4.3507,-0.89477,0.43293,0.10932,7.4126,-0.40616,-0.6874,-0.6021,97.136,#7,0.51343,0.33728,-0.78907,51.978,-0.65561,0.74746,-0.10709,37.897,0.55368,0.57231,0.60489,0.085342,#8,-0.18202,-0.58291,0.79189,-76.195,-0.89556,0.4308,0.11126,32.113,-0.406,-0.68893,-0.60045,220.29,#9,-0.51344,-0.33695,-0.78921,163.28,0.65597,-0.74705,-0.10781,26.131,-0.55325,-0.57305,0.60459,108.28,#10,0.18686,0.58256,0.79102,-164.49,0.89213,-0.43777,0.11166,-41.997,0.41133,0.68483,-0.60152,114.04,#11,-0.5113,-0.33894,-0.78974,267.99,0.65753,-0.746,-0.10553,-4.1079,-0.55338,-0.57324,0.60429,85.194,#12,0.18521,0.58216,0.7917,-249.68,0.89231,-0.43714,0.11269,-106.48,0.41169,0.68556,-0.60043,145.18
Drag select of 23 atoms, 442 residues
Drag select of 2 residues
> undo
> view matrix models
> #5,0.51491,0.33744,-0.78803,53.814,-0.65493,0.74798,-0.10765,-3.7738,0.55311,0.57154,0.60615,5.6243,#6,-0.18551,-0.58314,0.7909,31.709,-0.89477,0.43293,0.10932,-3.5603,-0.40616,-0.6874,-0.6021,55.416,#7,0.51343,0.33728,-0.78907,88.038,-0.65561,0.74746,-0.10709,26.924,0.55368,0.57231,0.60489,-41.635,#8,-0.18202,-0.58291,0.79189,-40.136,-0.89556,0.4308,0.11126,21.14,-0.406,-0.68893,-0.60045,178.57,#9,-0.51344,-0.33695,-0.78921,199.34,0.65597,-0.74705,-0.10781,15.158,-0.55325,-0.57305,0.60459,66.559,#10,0.18686,0.58256,0.79102,-128.43,0.89213,-0.43777,0.11166,-52.97,0.41133,0.68483,-0.60152,72.321,#11,-0.5113,-0.33894,-0.78974,304.05,0.65753,-0.746,-0.10553,-15.081,-0.55338,-0.57324,0.60429,43.474,#12,0.18521,0.58216,0.7917,-213.62,0.89231,-0.43714,0.11269,-117.45,0.41169,0.68556,-0.60043,103.46
Drag select of 25 atoms, 506 residues
> view matrix models
> #5,0.51491,0.33744,-0.78803,58.759,-0.65493,0.74798,-0.10765,-11.565,0.55311,0.57154,0.60615,3.2738,#6,-0.18551,-0.58314,0.7909,36.653,-0.89477,0.43293,0.10932,-11.352,-0.40616,-0.6874,-0.6021,53.065,#7,0.51343,0.33728,-0.78907,92.982,-0.65561,0.74746,-0.10709,19.132,0.55368,0.57231,0.60489,-43.985,#8,-0.18202,-0.58291,0.79189,-35.192,-0.89556,0.4308,0.11126,13.348,-0.406,-0.68893,-0.60045,176.22,#9,-0.51344,-0.33695,-0.78921,204.28,0.65597,-0.74705,-0.10781,7.3667,-0.55325,-0.57305,0.60459,64.209,#10,0.18686,0.58256,0.79102,-123.49,0.89213,-0.43777,0.11166,-60.762,0.41133,0.68483,-0.60152,69.97,#11,-0.5113,-0.33894,-0.78974,308.99,0.65753,-0.746,-0.10553,-22.873,-0.55338,-0.57324,0.60429,41.124,#12,0.18521,0.58216,0.7917,-208.67,0.89231,-0.43714,0.11269,-125.24,0.41169,0.68556,-0.60043,101.11
> select add #8
131760 atoms, 133808 bonds, 128 pseudobonds, 17112 residues, 80 models
selected
> select subtract #8
115290 atoms, 117082 bonds, 112 pseudobonds, 14973 residues, 78 models
selected
> view matrix models
> #5,0.51491,0.33744,-0.78803,47.696,-0.65493,0.74798,-0.10765,-6.2953,0.55311,0.57154,0.60615,13.231,#6,-0.18551,-0.58314,0.7909,25.59,-0.89477,0.43293,0.10932,-6.0819,-0.40616,-0.6874,-0.6021,63.022,#7,0.51343,0.33728,-0.78907,81.92,-0.65561,0.74746,-0.10709,24.402,0.55368,0.57231,0.60489,-34.028,#9,-0.51344,-0.33695,-0.78921,193.22,0.65597,-0.74705,-0.10781,12.637,-0.55325,-0.57305,0.60459,74.165,#10,0.18686,0.58256,0.79102,-134.55,0.89213,-0.43777,0.11166,-55.492,0.41133,0.68483,-0.60152,79.927,#11,-0.5113,-0.33894,-0.78974,297.93,0.65753,-0.746,-0.10553,-17.602,-0.55338,-0.57324,0.60429,51.081,#12,0.18521,0.58216,0.7917,-219.74,0.89231,-0.43714,0.11269,-119.97,0.41169,0.68556,-0.60043,111.07
> select subtract #7
98820 atoms, 100356 bonds, 96 pseudobonds, 12834 residues, 68 models selected
> select subtract #6
82350 atoms, 83630 bonds, 80 pseudobonds, 10695 residues, 58 models selected
> select subtract #5
65880 atoms, 66904 bonds, 64 pseudobonds, 8556 residues, 56 models selected
> select subtract #9
49410 atoms, 50178 bonds, 48 pseudobonds, 6417 residues, 38 models selected
> select subtract #10
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 28 models selected
> select subtract #11
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 26 models selected
> select subtract #12
8 models selected
> select add #8
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 2 models selected
> select add #12
32940 atoms, 33452 bonds, 32 pseudobonds, 4278 residues, 12 models selected
> select subtract #12
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 18 models selected
> view matrix models
> #8,-0.18202,-0.58291,0.79189,-44.358,-0.89556,0.4308,0.11126,23.694,-0.406,-0.68893,-0.60045,182.16
Drag select of 58 atoms, 1018 residues
> view matrix models
> #8,-0.18202,-0.58291,0.79189,-57.055,-0.89556,0.4308,0.11126,7.8428,-0.406,-0.68893,-0.60045,225.31
> ui mousemode right "translate selected models"
> view matrix models
> #8,-0.18202,-0.58291,0.79189,-58.65,-0.89556,0.4308,0.11126,9.8797,-0.406,-0.68893,-0.60045,226.85
> ui mousemode right "move picked models"
> ui mousemode right "translate selected models"
> view matrix models
> #8,-0.25701,-0.41681,0.87191,-72.014,-0.79877,0.59946,0.051112,3.5921,-0.54397,-0.68332,-0.487,220.69
> view matrix models
> #8,-0.25701,-0.41681,0.87191,-71.938,-0.79877,0.59946,0.051112,-10.428,-0.54397,-0.68332,-0.487,234.04
> color sel bychain
> view matrix models
> #8,-0.25701,-0.41681,0.87191,-75.313,-0.79877,0.59946,0.051112,-8.5794,-0.54397,-0.68332,-0.487,231.22
> color sel bypolymer
> color bfactor sel
8114 atoms, 1063 residues, 5 surfaces, atom bfactor range 23 to 130
> view matrix models
> #8,-0.25701,-0.41681,0.87191,-59.565,-0.79877,0.59946,0.051112,-11.813,-0.54397,-0.68332,-0.487,243.94
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> view matrix models
> #8,-0.25701,-0.41681,0.87191,-49.495,-0.79877,0.59946,0.051112,2.7171,-0.54397,-0.68332,-0.487,244.23
> sequence chain #8/A,E,F,G,H
Alignment identifier is 1
> alphafold match #1
1 AlphaFold model found using UniProt identifier: Q99JB8 (chains A,B)
AlphaFold prediction matching 3QE6_A
---
Chain| UniProt Id| UniProt Name| RMSD| Length| Seen| % Id
A | Q99JB8 | PACN3_MOUSE | 1.83 | 304 | 283 | 100
B | Q99JB8 | PACN3_MOUSE | 2.17 | 304 | 286 | 100
Opened 2 AlphaFold models
> hide #!8 models
> select add #8
16470 atoms, 16726 bonds, 16 pseudobonds, 2139 residues, 7 models selected
> select subtract #8
8 models selected
> select add #13
5012 atoms, 5128 bonds, 608 residues, 3 models selected
> view matrix models #13,1,0,0,16.12,0,1,0,-24.11,0,0,1,-33.677
> color sel bypolymer
> view matrix models #13,1,0,0,6.7947,0,1,0,-29.628,0,0,1,-34.632
> color bfactor sel
5012 atoms, 608 residues, atom bfactor range 31.4 to 98.8
> interfaces select & ~solvent
Missing or invalid "atoms" argument: invalid atoms specifier
> view matrix models #13,1,0,0,6.873,0,1,0,-4.962,0,0,1,-127.93
> view matrix models #13,1,0,0,5.5392,0,1,0,9.1352,0,0,1,-126.36
> color sel bychain
> hbonds sel reveal true
96 atoms were skipped as donors/acceptors due to missing heavy-atom bond
partners
729 hydrogen bonds found
> view matrix models #13,1,0,0,-13.369,0,1,0,-2.2205,0,0,1,-127.57
> view matrix models #13,1,0,0,-11.76,0,1,0,-5.1281,0,0,1,-120.11
> view matrix models #13,1,0,0,-6.5766,0,1,0,-11.274,0,0,1,-91.89
> view matrix models #13,1,0,0,3.8522,0,1,0,-13.246,0,0,1,-87.123
> view matrix models #13,1,0,0,19.65,0,1,0,3.6954,0,0,1,-80.144
> view matrix models #13,1,0,0,25.135,0,1,0,7.7921,0,0,1,-76.089
> view matrix models #13,1,0,0,28.651,0,1,0,29.789,0,0,1,-70.335
> coulombic sel
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for AlphaFold PACN3_MOUSE chain A_A SES surface #13.1.1:
minimum, -18.51, mean -0.73, maximum 13.25
Coulombic values for AlphaFold PACN3_MOUSE chain B_B SES surface #13.2.1:
minimum, -18.51, mean -0.73, maximum 13.25
To also show corresponding color key, enter the above coulombic command and
add key true
> show sel cartoons
> hide sel surfaces
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.11.dev202508300055 (2025-08-30)
© 2016-2025 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 3.3.0 Core Profile Context 25.8.1.250723
OpenGL renderer: AMD Radeon RX 7800 XT
OpenGL vendor: ATI Technologies Inc.
Python: 3.11.9
Locale: de_DE.cp1252
Qt version: PyQt6 6.9.1, Qt 6.9.0
Qt runtime version: 6.9.1
Qt platform: windows
Manufacturer: To Be Filled By O.E.M.
Model: To Be Filled By O.E.M.
OS: Microsoft Windows 10 Pro (Build 19045)
Memory: 137,291,546,624
MaxProcessMemory: 137,438,953,344
CPU: 12 Intel(R) Core(TM) i5-10400F CPU @ 2.90GHz
OSLanguage: de-DE
Installed Packages:
alabaster: 1.0.0
appdirs: 1.4.4
asttokens: 3.0.0
babel: 2.17.0
beautifulsoup4: 4.13.5
blockdiag: 3.0.0
blosc2: 3.7.2
build: 1.3.0
certifi: 2025.8.3
cftime: 1.6.4.post1
charset-normalizer: 3.4.3
ChimeraX-AddCharge: 1.5.20
ChimeraX-AddH: 2.2.7
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.6.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 3.0.2
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Aniso: 1.3.2
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.60.16
ChimeraX-AtomicLibrary: 14.1.23
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.dev202508300055
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: 1.7.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
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-MDcrds: 2.17.1
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-Minimize: 1.2
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.16
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.22
ChimeraX-ModelPanel: 1.5.1
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: 1.15.1
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.10
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.3
ChimeraX-ProfileGrids: 1.3.1
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: 1.3.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.2
ChimeraX-Scenes: 0.2.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.3
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.7
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.17.2
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: 1.48.2
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDock: 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: 1.1.5
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.3
comtypes: 1.4.11
contourpy: 1.3.3
coverage: 7.10.6
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.1.3
debugpy: 1.8.16
decorator: 5.2.1
docutils: 0.21.2
executing: 2.2.0
filelock: 3.19.1
fonttools: 4.59.2
funcparserlib: 2.0.0a0
glfw: 2.9.0
grako: 3.16.5
h5py: 3.14.0
html2text: 2025.4.15
idna: 3.10
ihm: 2.2
imagecodecs: 2024.6.1
imagesize: 1.4.1
iniconfig: 2.1.0
ipykernel: 6.30.1
ipython: 9.5.0
ipython_pygments_lexers: 1.1.1
ipywidgets: 8.1.7
jedi: 0.19.2
Jinja2: 3.1.6
jupyter_client: 8.6.3
jupyter_core: 5.8.1
jupyterlab_widgets: 3.0.15
kiwisolver: 1.4.9
line_profiler: 5.0.0
lxml: 6.0.1
lz4: 4.3.2
Markdown: 3.8.2
MarkupSafe: 3.0.2
matplotlib: 3.10.5
matplotlib-inline: 0.1.7
msgpack: 1.1.1
narwhals: 2.3.0
ndindex: 1.10.0
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.11.0
numpy: 2.2.6
numpy: 1.26.4
nvidia-nvjitlink-cu12: 12.9.86
OpenMM: 8.2.0
OpenMM-CUDA-12: 8.2.0
openvr: 1.26.701
packaging: 25.0
ParmEd: 4.2.2
parso: 0.8.5
pep517: 0.13.1
pickleshare: 0.7.5
pillow: 11.3.0
pip: 25.2
pkginfo: 1.12.1.2
platformdirs: 4.4.0
plotly: 6.0.1
pluggy: 1.6.0
prompt_toolkit: 3.0.52
psutil: 7.0.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pybind11: 3.0.1
pycollada: 0.8
pydicom: 2.4.4
Pygments: 2.18.0
pyKVFinder: 0.8.1
pynmrstar: 3.3.5
pynrrd: 1.0.0
PyOpenGL: 3.1.10
PyOpenGL-accelerate: 3.1.10
pyopenxr: 1.1.4501
pyparsing: 3.2.3
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.9.1
PyQt6-Qt6: 6.9.1
PyQt6-WebEngine-commercial: 6.9.0
PyQt6-WebEngine-Qt6: 6.9.1
PyQt6_sip: 13.10.2
pytest: 8.4.1
pytest-cov: 6.2.1
python-dateutil: 2.9.0.post0
pytz: 2025.2
pywin32: 311
pyzmq: 27.0.2
qtconsole: 5.6.1
QtPy: 2.4.3
qtshim: 1.2
RandomWords: 0.4.0
requests: 2.32.4
roman-numerals-py: 3.1.0
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
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
stack-data: 0.6.3
superqt: 0.7.6
tables: 3.10.2
tcia_utils: 1.5.1
tifffile: 2025.3.13
tinyarray: 1.2.5
tomlkit: 0.13.2
tornado: 6.5.2
traitlets: 5.14.3
typing_extensions: 4.15.0
tzdata: 2025.2
urllib3: 2.5.0
wcwidth: 0.2.13
webcolors: 24.11.1
wheel: 0.45.1
wheel-filename: 1.4.2
widgetsnbextension: 4.0.14
WMI: 1.5.1
Change History (2)
comment:1 by , 2 months ago
| Cc: | added |
|---|---|
| Component: | Unassigned → Core |
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Crash in event loop |
comment:2 by , 2 months ago
| Resolution: | → can't reproduce |
|---|---|
| Status: | accepted → closed |
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