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#8363 closed defect (can't reproduce)

Crash saving image

Reported by:	chimerax-bug-report@…	Owned by:	Tom Goddard
Priority:	normal	Milestone:
Component:	Input/Output	Version:
Keywords:		Cc:
Blocked By:		Blocking:
Notify when closed:		Platform:	all
Project:	ChimeraX

Description

The following bug report has been submitted:
Platform:        Linux-3.10.0-1160.6.1.el7.x86_64-x86_64-with-glibc2.17
ChimeraX Version: 1.3 (2021-12-08 23:08:33 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
Fatal Python error: Segmentation fault

Current thread 0x00007fef4d246740 (most recent call first):
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/ImageFile.py", line 518 in _save
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/PngImagePlugin.py", line 1349 in _save
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/PIL/Image.py", line 2235 in save
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/image_formats/save.py", line 123 in save_image
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/image_formats/__init__.py", line 45 in save
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/cmd.py", line 89 in provider_save
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/cmd.py", line 75 in cmd_save
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/core/commands/cli.py", line 2856 in run
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/core/commands/run.py", line 36 in run
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/dialog.py", line 51 in display
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/dialog.py", line 127 in show_save_file_dialog
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/save_command/dialog.py", line 116 in 
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/chimerax/ui/gui.py", line 301 in event_loop
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/ChimeraX_main.py", line 867 in init
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/site-packages/ChimeraX_main.py", line 1018 in 
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/runpy.py", line 87 in _run_code
  File "/programs/x86_64-linux/chimerax/1.3/libexec/UCSF-ChimeraX/lib/python3.9/runpy.py", line 197 in _run_module_as_main
===== Log before crash start =====
UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open 20230123-inoncp-map.cxs

Opened 20220822-inoncp-class3-ies2-highres.mrc as #21.1, grid size
448,448,448, pixel 0.835, shown at level 0.122, step 1, values float32  
Opened 20220821-inoncp-class3-ies2-lowres-filter.mrc as #21.2, grid size
448,448,448, pixel 0.835, shown at level 0.000509, step 1, values float32  
Opened 20220822-inoncp-class3-dna.mrc as #21.3, grid size 448,448,448, pixel
0.835, shown at level 0.74, step 1, values float32  
Opened 20220822-inoncp-class3-h2ab.mrc as #21.4, grid size 448,448,448, pixel
0.835, shown at level 0.427, step 1, values float32  
Opened 20220821-inoncp-class3-h34.mrc as #21.5, grid size 448,448,448, pixel
0.835, shown at level 0.907, step 1, values float32  
Opened 20220822-inoncp-class3-ies6.mrc as #21.6, grid size 448,448,448, pixel
0.835, shown at level 0.156, step 1, values float32  
Opened 20220822-inoncp-class3-atpase.mrc as #21.7, grid size 448,448,448,
pixel 0.835, shown at level 0.00549, step 1, values float32  
Opened 20220822-inoncp-class3-arp5.mrc as #21.8, grid size 448,448,448, pixel
0.835, shown at level 0.0911, step 1, values float32  
Opened 20220822-inoncp-class3-rvb2.mrc as #21.9, grid size 448,448,448, pixel
0.835, shown at level 0.0965, step 1, values float32  
Opened 20220822-inoncp-class3-rvb1.mrc as #21.10, grid size 448,448,448, pixel
0.835, shown at level 0.179, step 1, values float32  
Opened 20220822-inoncp-class3-atpase-filter-resampleonhex.mrc as #21.11, grid
size 448,448,448, pixel 0.835, shown at level 0.000734, step 1, values float32  
Opened 20220822-inoncp-class3-ncp-longlinker-filter-resampleonhex.mrc as
#21.12, grid size 448,448,448, pixel 0.835, shown at level 0.000804, step 1,
values float32  
Opened 20220822-inoncp-class5-a5-helix-7-filter.mrc as #1.1, grid size
448,448,448, pixel 0.835, shown at level 0.000529, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-6-filter.mrc as #1.2, grid size
448,448,448, pixel 0.835, shown at level 0.00152, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-5-filter.mrc as #1.3, grid size
448,448,448, pixel 0.835, shown at level 0.000927, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-4-filter.mrc as #1.4, grid size
448,448,448, pixel 0.835, shown at level 0.000784, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-3-filter.mrc as #1.5, grid size
448,448,448, pixel 0.835, shown at level 0.000974, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-2-filter.mrc as #1.6, grid size
448,448,448, pixel 0.835, shown at level 0.00151, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-1-filter.mrc as #1.7, grid size
448,448,448, pixel 0.835, shown at level 0.0016, step 1, values float32  
Opened 20220822-inoncp-class5-dna.mrc as #2.2, grid size 448,448,448, pixel
0.835, shown at level 0.913, step 1, values float32  
Opened 20220822-inoncp-class5-h2ab.mrc as #2.3, grid size 448,448,448, pixel
0.835, shown at level 0.346, step 1, values float32  
Opened 20220822-inoncp-class5-h34.mrc as #2.4, grid size 448,448,448, pixel
0.835, shown at level 0.298, step 1, values float32  
Opened 20220822-inoncp-class5-rvb2.mrc as #3.1, grid size 448,448,448, pixel
0.835, shown at level 0.0973, step 1, values float32  
Opened 20220822-inoncp-class5-rvb1.mrc as #3.2, grid size 448,448,448, pixel
0.835, shown at level 0.0919, step 1, values float32  
Opened 20220822-inoncp-class5-ies6.mrc as #3.3, grid size 448,448,448, pixel
0.835, shown at level 0.0939, step 1, values float32  
Opened 20220822-inoncp-class5-arp5.mrc as #3.4, grid size 448,448,448, pixel
0.835, shown at level 0.143, step 1, values float32  
Opened 20220822-inoncp-class5-atpase-highres.mrc as #4, grid size 448,448,448,
pixel 0.835, shown at level 0.0233, step 1, values float32  
Opened 20220822-inoncp-class5-ncp-longlinker-resampleonhex-filter.mrc as #5.2,
grid size 448,448,448, pixel 0.835, shown at level 0.00104, step 1, values
float32  
Opened 20220822-inoncp-class5-atpase-resampleonhex-filter.mrc as #5.3, grid
size 448,448,448, pixel 0.835, shown at level 0.000303, step 1, values float32  
Opened 20220822-inoncp-class5-ies2-lowres-filter.mrc as #6, grid size
448,448,448, pixel 0.835, shown at level 0.00193, step 1, values float32  
Opened 20230123-inoncp-a5-grappler-all-filter0.835.mrc as #7, grid size
448,448,448, pixel 0.835, shown at level 0.000417, step 1, values float32  
Log from Mon Jan 23 22:10:40 2023UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/20221013-f3/20221013-inoncp-
> map.cxs

Opened 20220822-inoncp-class3-ies2-highres.mrc as #21.1, grid size
448,448,448, pixel 0.835, shown at level 0.122, step 1, values float32  
Opened 20220821-inoncp-class3-ies2-lowres-filter.mrc as #21.2, grid size
448,448,448, pixel 0.835, shown at level 0.000509, step 1, values float32  
Opened 20220822-inoncp-class3-dna.mrc as #21.3, grid size 448,448,448, pixel
0.835, shown at level 0.74, step 1, values float32  
Opened 20220822-inoncp-class3-h2ab.mrc as #21.4, grid size 448,448,448, pixel
0.835, shown at level 0.427, step 1, values float32  
Opened 20220821-inoncp-class3-h34.mrc as #21.5, grid size 448,448,448, pixel
0.835, shown at level 0.907, step 1, values float32  
Opened 20220822-inoncp-class3-ies6.mrc as #21.6, grid size 448,448,448, pixel
0.835, shown at level 0.156, step 1, values float32  
Opened 20220822-inoncp-class3-atpase.mrc as #21.7, grid size 448,448,448,
pixel 0.835, shown at level 0.00549, step 1, values float32  
Opened 20220822-inoncp-class3-arp5.mrc as #21.8, grid size 448,448,448, pixel
0.835, shown at level 0.0911, step 1, values float32  
Opened 20220822-inoncp-class3-rvb2.mrc as #21.9, grid size 448,448,448, pixel
0.835, shown at level 0.0965, step 1, values float32  
Opened 20220822-inoncp-class3-rvb1.mrc as #21.10, grid size 448,448,448, pixel
0.835, shown at level 0.179, step 1, values float32  
Opened 20220822-inoncp-class3-atpase-filter-resampleonhex.mrc as #21.11, grid
size 448,448,448, pixel 0.835, shown at level 0.000734, step 1, values float32  
Opened 20220822-inoncp-class3-ncp-longlinker-filter-resampleonhex.mrc as
#21.12, grid size 448,448,448, pixel 0.835, shown at level 0.000804, step 1,
values float32  
Opened 20220822-inoncp-class5-a5-helix-7-filter.mrc as #1.1, grid size
448,448,448, pixel 0.835, shown at level 0.000529, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-6-filter.mrc as #1.2, grid size
448,448,448, pixel 0.835, shown at level 0.00152, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-5-filter.mrc as #1.3, grid size
448,448,448, pixel 0.835, shown at level 0.000927, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-4-filter.mrc as #1.4, grid size
448,448,448, pixel 0.835, shown at level 0.000784, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-3-filter.mrc as #1.5, grid size
448,448,448, pixel 0.835, shown at level 0.000974, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-2-filter.mrc as #1.6, grid size
448,448,448, pixel 0.835, shown at level 0.00151, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-1-filter.mrc as #1.7, grid size
448,448,448, pixel 0.835, shown at level 0.0016, step 1, values float32  
Opened 20220822-inoncp-class5-dna.mrc as #2.2, grid size 448,448,448, pixel
0.835, shown at level 0.913, step 1, values float32  
Opened 20220822-inoncp-class5-h2ab.mrc as #2.3, grid size 448,448,448, pixel
0.835, shown at level 0.346, step 1, values float32  
Opened 20220822-inoncp-class5-h34.mrc as #2.4, grid size 448,448,448, pixel
0.835, shown at level 0.298, step 1, values float32  
Opened 20220822-inoncp-class5-rvb2.mrc as #3.1, grid size 448,448,448, pixel
0.835, shown at level 0.0973, step 1, values float32  
Opened 20220822-inoncp-class5-rvb1.mrc as #3.2, grid size 448,448,448, pixel
0.835, shown at level 0.0919, step 1, values float32  
Opened 20220822-inoncp-class5-ies6.mrc as #3.3, grid size 448,448,448, pixel
0.835, shown at level 0.0939, step 1, values float32  
Opened 20220822-inoncp-class5-arp5.mrc as #3.4, grid size 448,448,448, pixel
0.835, shown at level 0.143, step 1, values float32  
Opened 20220822-inoncp-class5-atpase-highres.mrc as #4, grid size 448,448,448,
pixel 0.835, shown at level 0.0233, step 1, values float32  
Opened 20220822-inoncp-class5-ncp-longlinker-resampleonhex-filter.mrc as #5.2,
grid size 448,448,448, pixel 0.835, shown at level 0.00104, step 1, values
float32  
Opened 20220822-inoncp-class5-atpase-resampleonhex-filter.mrc as #5.3, grid
size 448,448,448, pixel 0.835, shown at level 0.000303, step 1, values float32  
Opened 20220822-inoncp-class5-ies2-lowres-filter.mrc as #6, grid size
448,448,448, pixel 0.835, shown at level 0.00193, step 1, values float32  
Log from Thu Oct 13 13:48:09 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220915-figure3/20220915-inoncp-
> map-comp.cxs

Opened 20220822-inoncp-class3-ies2-highres.mrc as #21.1, grid size
448,448,448, pixel 0.835, shown at level 0.122, step 1, values float32  
Opened 20220821-inoncp-class3-ies2-lowres-filter.mrc as #21.2, grid size
448,448,448, pixel 0.835, shown at level 0.000509, step 1, values float32  
Opened 20220822-inoncp-class3-dna.mrc as #21.3, grid size 448,448,448, pixel
0.835, shown at level 0.74, step 1, values float32  
Opened 20220822-inoncp-class3-h2ab.mrc as #21.4, grid size 448,448,448, pixel
0.835, shown at level 0.427, step 1, values float32  
Opened 20220821-inoncp-class3-h34.mrc as #21.5, grid size 448,448,448, pixel
0.835, shown at level 0.907, step 1, values float32  
Opened 20220822-inoncp-class3-ies6.mrc as #21.6, grid size 448,448,448, pixel
0.835, shown at level 0.156, step 1, values float32  
Opened 20220822-inoncp-class3-atpase.mrc as #21.7, grid size 448,448,448,
pixel 0.835, shown at level 0.00549, step 1, values float32  
Opened 20220822-inoncp-class3-arp5.mrc as #21.8, grid size 448,448,448, pixel
0.835, shown at level 0.0911, step 1, values float32  
Opened 20220822-inoncp-class3-rvb2.mrc as #21.9, grid size 448,448,448, pixel
0.835, shown at level 0.0965, step 1, values float32  
Opened 20220822-inoncp-class3-rvb1.mrc as #21.10, grid size 448,448,448, pixel
0.835, shown at level 0.179, step 1, values float32  
Opened 20220822-inoncp-class3-atpase-filter-resampleonhex.mrc as #21.11, grid
size 448,448,448, pixel 0.835, shown at level 0.000734, step 1, values float32  
Opened 20220822-inoncp-class3-ncp-longlinker-filter-resampleonhex.mrc as
#21.12, grid size 448,448,448, pixel 0.835, shown at level 0.000804, step 1,
values float32  
Opened 20220822-inoncp-class5-a5-helix-7-filter.mrc as #1.1, grid size
448,448,448, pixel 0.835, shown at level 0.000529, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-6-filter.mrc as #1.2, grid size
448,448,448, pixel 0.835, shown at level 0.00152, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-5-filter.mrc as #1.3, grid size
448,448,448, pixel 0.835, shown at level 0.000927, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-4-filter.mrc as #1.4, grid size
448,448,448, pixel 0.835, shown at level 0.000784, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-3-filter.mrc as #1.5, grid size
448,448,448, pixel 0.835, shown at level 0.000974, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-2-filter.mrc as #1.6, grid size
448,448,448, pixel 0.835, shown at level 0.00151, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-1-filter.mrc as #1.7, grid size
448,448,448, pixel 0.835, shown at level 0.0016, step 1, values float32  
Opened 20220822-inoncp-class5-dna.mrc as #2.2, grid size 448,448,448, pixel
0.835, shown at level 0.913, step 1, values float32  
Opened 20220822-inoncp-class5-h2ab.mrc as #2.3, grid size 448,448,448, pixel
0.835, shown at level 0.346, step 1, values float32  
Opened 20220822-inoncp-class5-h34.mrc as #2.4, grid size 448,448,448, pixel
0.835, shown at level 0.298, step 1, values float32  
Opened 20220822-inoncp-class5-rvb2.mrc as #3.1, grid size 448,448,448, pixel
0.835, shown at level 0.0973, step 1, values float32  
Opened 20220822-inoncp-class5-rvb1.mrc as #3.2, grid size 448,448,448, pixel
0.835, shown at level 0.0919, step 1, values float32  
Opened 20220822-inoncp-class5-ies6.mrc as #3.3, grid size 448,448,448, pixel
0.835, shown at level 0.0939, step 1, values float32  
Opened 20220822-inoncp-class5-arp5.mrc as #3.4, grid size 448,448,448, pixel
0.835, shown at level 0.143, step 1, values float32  
Opened 20220822-inoncp-class5-atpase-highres.mrc as #4, grid size 448,448,448,
pixel 0.835, shown at level 0.0233, step 1, values float32  
Opened 20220822-inoncp-class5-ncp-longlinker-resampleonhex-filter.mrc as #5.2,
grid size 448,448,448, pixel 0.835, shown at level 0.00104, step 1, values
float32  
Opened 20220822-inoncp-class5-atpase-resampleonhex-filter.mrc as #5.3, grid
size 448,448,448, pixel 0.835, shown at level 0.000303, step 1, values float32  
Opened 20220822-inoncp-class5-ies2-lowres-filter.mrc as #6, grid size
448,448,448, pixel 0.835, shown at level 0.00193, step 1, values float32  
Log from Thu Sep 15 23:25:27 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> map.cxs format session

Opened 20220822-inoncp-class3-ies2-highres.mrc as #21.1, grid size
448,448,448, pixel 0.835, shown at level 0.122, step 1, values float32  
Opened 20220821-inoncp-class3-ies2-lowres-filter.mrc as #21.2, grid size
448,448,448, pixel 0.835, shown at level 0.000509, step 1, values float32  
Opened 20220822-inoncp-class3-dna.mrc as #21.3, grid size 448,448,448, pixel
0.835, shown at level 0.74, step 1, values float32  
Opened 20220822-inoncp-class3-h2ab.mrc as #21.4, grid size 448,448,448, pixel
0.835, shown at level 0.427, step 1, values float32  
Opened 20220821-inoncp-class3-h34.mrc as #21.5, grid size 448,448,448, pixel
0.835, shown at level 0.907, step 1, values float32  
Opened 20220822-inoncp-class3-ies6.mrc as #21.6, grid size 448,448,448, pixel
0.835, shown at level 0.156, step 1, values float32  
Opened 20220822-inoncp-class3-atpase.mrc as #21.7, grid size 448,448,448,
pixel 0.835, shown at level 0.00549, step 1, values float32  
Opened 20220822-inoncp-class3-arp5.mrc as #21.8, grid size 448,448,448, pixel
0.835, shown at level 0.0911, step 1, values float32  
Opened 20220822-inoncp-class3-rvb2.mrc as #21.9, grid size 448,448,448, pixel
0.835, shown at level 0.0965, step 1, values float32  
Opened 20220822-inoncp-class3-rvb1.mrc as #21.10, grid size 448,448,448, pixel
0.835, shown at level 0.179, step 1, values float32  
Opened 20220822-inoncp-class3-atpase-filter-resampleonhex.mrc as #21.11, grid
size 448,448,448, pixel 0.835, shown at level 0.000734, step 1, values float32  
Opened 20220822-inoncp-class3-ncp-longlinker-filter-resampleonhex.mrc as
#21.12, grid size 448,448,448, pixel 0.835, shown at level 0.000804, step 1,
values float32  
Opened 20220822-inoncp-class5-a5-helix-7-filter.mrc as #1.1, grid size
448,448,448, pixel 0.835, shown at level 0.000529, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-6-filter.mrc as #1.2, grid size
448,448,448, pixel 0.835, shown at level 0.00152, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-5-filter.mrc as #1.3, grid size
448,448,448, pixel 0.835, shown at level 0.000927, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-4-filter.mrc as #1.4, grid size
448,448,448, pixel 0.835, shown at level 0.000784, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-3-filter.mrc as #1.5, grid size
448,448,448, pixel 0.835, shown at level 0.000974, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-2-filter.mrc as #1.6, grid size
448,448,448, pixel 0.835, shown at level 0.00151, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-1-filter.mrc as #1.7, grid size
448,448,448, pixel 0.835, shown at level 0.0016, step 1, values float32  
Opened 20220822-inoncp-class5-dna.mrc as #2.2, grid size 448,448,448, pixel
0.835, shown at level 0.913, step 1, values float32  
Opened 20220822-inoncp-class5-h2ab.mrc as #2.3, grid size 448,448,448, pixel
0.835, shown at level 0.346, step 1, values float32  
Opened 20220822-inoncp-class5-h34.mrc as #2.4, grid size 448,448,448, pixel
0.835, shown at level 0.298, step 1, values float32  
Opened 20220822-inoncp-class5-rvb2.mrc as #3.1, grid size 448,448,448, pixel
0.835, shown at level 0.0973, step 1, values float32  
Opened 20220822-inoncp-class5-rvb1.mrc as #3.2, grid size 448,448,448, pixel
0.835, shown at level 0.0919, step 1, values float32  
Opened 20220822-inoncp-class5-ies6.mrc as #3.3, grid size 448,448,448, pixel
0.835, shown at level 0.0939, step 1, values float32  
Opened 20220822-inoncp-class5-arp5.mrc as #3.4, grid size 448,448,448, pixel
0.835, shown at level 0.143, step 1, values float32  
Opened 20220822-inoncp-class5-atpase-highres.mrc as #4, grid size 448,448,448,
pixel 0.835, shown at level 0.0233, step 1, values float32  
Opened 20220822-inoncp-class5-ncp-longlinker-resampleonhex-filter.mrc as #5.2,
grid size 448,448,448, pixel 0.835, shown at level 0.00104, step 1, values
float32  
Opened 20220822-inoncp-class5-atpase-resampleonhex-filter.mrc as #5.3, grid
size 448,448,448, pixel 0.835, shown at level 0.000303, step 1, values float32  
Opened 20220822-inoncp-class5-ies2-lowres-filter.mrc as #6, grid size
448,448,448, pixel 0.835, shown at level 0.00193, step 1, values float32  
Log from Tue Aug 23 17:27:59 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open 20220823-inoncp-map.cxs

Opened 20220822-inoncp-class3-ies2-highres.mrc as #21.1, grid size
448,448,448, pixel 0.835, shown at level 0.122, step 1, values float32  
Opened 20220821-inoncp-class3-ies2-lowres-filter.mrc as #21.2, grid size
448,448,448, pixel 0.835, shown at level 0.000509, step 1, values float32  
Opened 20220822-inoncp-class3-dna.mrc as #21.3, grid size 448,448,448, pixel
0.835, shown at level 0.74, step 1, values float32  
Opened 20220822-inoncp-class3-h2ab.mrc as #21.4, grid size 448,448,448, pixel
0.835, shown at level 0.427, step 1, values float32  
Opened 20220821-inoncp-class3-h34.mrc as #21.5, grid size 448,448,448, pixel
0.835, shown at level 0.907, step 1, values float32  
Opened 20220822-inoncp-class3-ies6.mrc as #21.6, grid size 448,448,448, pixel
0.835, shown at level 0.156, step 1, values float32  
Opened 20220822-inoncp-class3-atpase.mrc as #21.7, grid size 448,448,448,
pixel 0.835, shown at level 0.00549, step 1, values float32  
Opened 20220822-inoncp-class3-arp5.mrc as #21.8, grid size 448,448,448, pixel
0.835, shown at level 0.0911, step 1, values float32  
Opened 20220822-inoncp-class3-rvb2.mrc as #21.9, grid size 448,448,448, pixel
0.835, shown at level 0.0965, step 1, values float32  
Opened 20220822-inoncp-class3-rvb1.mrc as #21.10, grid size 448,448,448, pixel
0.835, shown at level 0.179, step 1, values float32  
Opened 20220822-inoncp-class3-atpase-filter-resampleonhex.mrc as #21.11, grid
size 448,448,448, pixel 0.835, shown at level 0.000734, step 1, values float32  
Opened 20220822-inoncp-class3-ncp-longlinker-filter-resampleonhex.mrc as
#21.12, grid size 448,448,448, pixel 0.835, shown at level 0.000804, step 1,
values float32  
Opened 20220822-inoncp-class5-a5-helix-7-filter.mrc as #1.1, grid size
448,448,448, pixel 0.835, shown at level 0.000529, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-6-filter.mrc as #1.2, grid size
448,448,448, pixel 0.835, shown at level 0.00152, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-5-filter.mrc as #1.3, grid size
448,448,448, pixel 0.835, shown at level 0.000927, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-4-filter.mrc as #1.4, grid size
448,448,448, pixel 0.835, shown at level 0.000784, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-3-filter.mrc as #1.5, grid size
448,448,448, pixel 0.835, shown at level 0.000974, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-2-filter.mrc as #1.6, grid size
448,448,448, pixel 0.835, shown at level 0.00151, step 1, values float32  
Opened 20220822-inoncp-class5-a5-helix-1-filter.mrc as #1.7, grid size
448,448,448, pixel 0.835, shown at level 0.0016, step 1, values float32  
Opened 20220822-inoncp-class5-dna.mrc as #2.2, grid size 448,448,448, pixel
0.835, shown at level 0.913, step 1, values float32  
Opened 20220822-inoncp-class5-h2ab.mrc as #2.3, grid size 448,448,448, pixel
0.835, shown at level 0.346, step 1, values float32  
Opened 20220822-inoncp-class5-h34.mrc as #2.4, grid size 448,448,448, pixel
0.835, shown at level 0.298, step 1, values float32  
Opened 20220822-inoncp-class5-rvb2.mrc as #3.1, grid size 448,448,448, pixel
0.835, shown at level 0.0973, step 1, values float32  
Opened 20220822-inoncp-class5-rvb1.mrc as #3.2, grid size 448,448,448, pixel
0.835, shown at level 0.0919, step 1, values float32  
Opened 20220822-inoncp-class5-ies6.mrc as #3.3, grid size 448,448,448, pixel
0.835, shown at level 0.0939, step 1, values float32  
Opened 20220822-inoncp-class5-arp5.mrc as #3.4, grid size 448,448,448, pixel
0.835, shown at level 0.143, step 1, values float32  
Opened 20220822-inoncp-class5-atpase-highres.mrc as #4, grid size 448,448,448,
pixel 0.835, shown at level 0.0233, step 1, values float32  
Opened 20220822-inoncp-class5-ncp-longlinker-resampleonhex-filter.mrc as #5.2,
grid size 448,448,448, pixel 0.835, shown at level 0.00104, step 1, values
float32  
Opened 20220822-inoncp-class5-atpase-resampleonhex-filter.mrc as #5.3, grid
size 448,448,448, pixel 0.835, shown at level 0.000303, step 1, values float32  
Log from Tue Aug 23 16:36:43 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open 20220817-inohex-f1-new-map.cxs

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 0.0813, step 1, values float32  
Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.0519, step 1, values float32  
Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.11, step 1, values float32  
Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 0.117, step 1, values float32  
Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 0.0305, step 1, values float32  
Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 0.00187, step 1, values float32  
Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 0.103, step 1, values float32  
Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.209, step 1, values float32  
Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.124, step 1, values float32  
Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 0.00299, step 1, values float32  
Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at step 1, values float32  
Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 0.0017, step 1, values float32  
Opened 20220612-swr-9.mrc as #16.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0301, step 1, values float32  
Opened 20220612-swr-8.mrc as #16.2, grid size 448,448,448, pixel 0.835, shown
at level 0.0406, step 1, values float32  
Opened 20220612-swr-7.mrc as #16.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0519, step 1, values float32  
Opened 20220612-swr-6.mrc as #16.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0362, step 1, values float32  
Opened 20220612-swr-5.mrc as #16.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0497, step 1, values float32  
Opened 20220612-swr-4.mrc as #16.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0281, step 1, values float32  
Opened 20220612-swr-3.mrc as #16.7, grid size 448,448,448, pixel 0.835, shown
at level 0.0479, step 1, values float32  
Opened 20220601-swr-2.mrc as #16.8, grid size 448,448,448, pixel 0.835, shown
at level 0.0331, step 1, values float32  
Opened 20220612-swr-1.mrc as #16.9, grid size 448,448,448, pixel 0.835, shown
at level 0.0391, step 1, values float32  
Opened 20220612-ino-10.mrc as #17.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0135, step 1, values float32  
Opened 20220612-ino-9.mrc as #17.2, grid size 448,448,448, pixel 0.835, shown
at level 0.00895, step 1, values float32  
Opened 20220612-ino-8.mrc as #17.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0158, step 1, values float32  
Opened 20220612-ino-7.mrc as #17.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0108, step 1, values float32  
Opened 20220612-ino-6.mrc as #17.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0103, step 1, values float32  
Opened 20220612-ino-5.mrc as #17.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0148, step 1, values float32  
Opened 20220612-ino-pub-4.mrc as #17.7, grid size 448,448,448, pixel 0.835,
shown at level 0.0167, step 1, values float32  
Opened 20220612-ino-pub-3.mrc as #17.8, grid size 448,448,448, pixel 0.835,
shown at level 0.0163, step 1, values float32  
Opened 20220612-ino-pub-2.mrc as #17.9, grid size 448,448,448, pixel 0.835,
shown at level 0.0174, step 1, values float32  
Opened 20220612-ino-pub-1.mrc as #17.10, grid size 448,448,448, pixel 0.835,
shown at level 0.0304, step 1, values float32  
Opened 20220623-hex-best-filter.mrc as #18, grid size 448,448,448, pixel
0.835, shown at level 0.00425, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix6-redo-filter.mrc as #19.1, grid size
448,448,448, pixel 0.835, shown at level 0.00138, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix5-redo-filter.mrc as #19.2, grid size
448,448,448, pixel 0.835, shown at level 0.000979, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix4-redo-filter.mrc as #19.3, grid size
448,448,448, pixel 0.835, shown at level 0.00251, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix3-redo-filter.mrc as #19.4, grid size
448,448,448, pixel 0.835, shown at level 0.00161, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix2-redo-filter.mrc as #19.5, grid size
448,448,448, pixel 0.835, shown at level 0.00212, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix1-redo-filter.mrc as #19.6, grid size
448,448,448, pixel 0.835, shown at level 0.00344, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix1-redo-filter-realign-new-filter.mrc
as #20, grid size 448,448,448, pixel 0.835, shown at level 0.000687, step 1,
values float32  
Log from Wed Aug 17 14:15:01 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-f1-new-
> map.cxs format session

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 0.0813, step 1, values float32  
Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.0519, step 1, values float32  
Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.11, step 1, values float32  
Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 0.117, step 1, values float32  
Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 0.0305, step 1, values float32  
Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 0.00187, step 1, values float32  
Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 0.103, step 1, values float32  
Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.209, step 1, values float32  
Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.124, step 1, values float32  
Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 0.00299, step 1, values float32  
Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at step 1, values float32  
Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 0.0017, step 1, values float32  
Opened 20220612-swr-9.mrc as #16.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0301, step 1, values float32  
Opened 20220612-swr-8.mrc as #16.2, grid size 448,448,448, pixel 0.835, shown
at level 0.0406, step 1, values float32  
Opened 20220612-swr-7.mrc as #16.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0519, step 1, values float32  
Opened 20220612-swr-6.mrc as #16.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0362, step 1, values float32  
Opened 20220612-swr-5.mrc as #16.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0497, step 1, values float32  
Opened 20220612-swr-4.mrc as #16.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0281, step 1, values float32  
Opened 20220612-swr-3.mrc as #16.7, grid size 448,448,448, pixel 0.835, shown
at level 0.0479, step 1, values float32  
Opened 20220601-swr-2.mrc as #16.8, grid size 448,448,448, pixel 0.835, shown
at level 0.0331, step 1, values float32  
Opened 20220612-swr-1.mrc as #16.9, grid size 448,448,448, pixel 0.835, shown
at level 0.0391, step 1, values float32  
Opened 20220612-ino-10.mrc as #17.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0135, step 1, values float32  
Opened 20220612-ino-9.mrc as #17.2, grid size 448,448,448, pixel 0.835, shown
at level 0.00895, step 1, values float32  
Opened 20220612-ino-8.mrc as #17.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0158, step 1, values float32  
Opened 20220612-ino-7.mrc as #17.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0108, step 1, values float32  
Opened 20220612-ino-6.mrc as #17.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0103, step 1, values float32  
Opened 20220612-ino-5.mrc as #17.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0148, step 1, values float32  
Opened 20220612-ino-pub-4.mrc as #17.7, grid size 448,448,448, pixel 0.835,
shown at level 0.0167, step 1, values float32  
Opened 20220612-ino-pub-3.mrc as #17.8, grid size 448,448,448, pixel 0.835,
shown at level 0.0163, step 1, values float32  
Opened 20220612-ino-pub-2.mrc as #17.9, grid size 448,448,448, pixel 0.835,
shown at level 0.0174, step 1, values float32  
Opened 20220612-ino-pub-1.mrc as #17.10, grid size 448,448,448, pixel 0.835,
shown at level 0.0304, step 1, values float32  
Opened 20220623-hex-best-filter.mrc as #18, grid size 448,448,448, pixel
0.835, shown at level 0.00425, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix6-redo-filter.mrc as #19.1, grid size
448,448,448, pixel 0.835, shown at level 0.00138, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix5-redo-filter.mrc as #19.2, grid size
448,448,448, pixel 0.835, shown at level 0.000979, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix4-redo-filter.mrc as #19.3, grid size
448,448,448, pixel 0.835, shown at level 0.00342, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix3-redo-filter.mrc as #19.4, grid size
448,448,448, pixel 0.835, shown at level 0.00161, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix2-redo-filter.mrc as #19.5, grid size
448,448,448, pixel 0.835, shown at level 0.00212, step 1, values float32  
Opened 20220815-inohex-a5-grappler-helix1-redo-filter.mrc as #19.6, grid size
448,448,448, pixel 0.835, shown at level 0.00353, step 1, values float32  
Log from Mon Aug 15 22:06:05 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220627-fig1-map-1.cxs

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 0.0813, step 1, values float32  
Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.0519, step 1, values float32  
Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.11, step 1, values float32  
Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 0.117, step 1, values float32  
Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 0.0305, step 1, values float32  
Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 0.00187, step 1, values float32  
Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 0.103, step 1, values float32  
Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.209, step 1, values float32  
Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.124, step 1, values float32  
Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 0.00299, step 1, values float32  
Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at step 1, values float32  
Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 0.0017, step 1, values float32  
Opened 20220612-swr-9.mrc as #16.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0301, step 1, values float32  
Opened 20220612-swr-8.mrc as #16.2, grid size 448,448,448, pixel 0.835, shown
at level 0.0406, step 1, values float32  
Opened 20220612-swr-7.mrc as #16.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0519, step 1, values float32  
Opened 20220612-swr-6.mrc as #16.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0362, step 1, values float32  
Opened 20220612-swr-5.mrc as #16.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0497, step 1, values float32  
Opened 20220612-swr-4.mrc as #16.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0281, step 1, values float32  
Opened 20220612-swr-3.mrc as #16.7, grid size 448,448,448, pixel 0.835, shown
at level 0.0479, step 1, values float32  
Opened 20220601-swr-2.mrc as #16.8, grid size 448,448,448, pixel 0.835, shown
at level 0.0331, step 1, values float32  
Opened 20220612-swr-1.mrc as #16.9, grid size 448,448,448, pixel 0.835, shown
at level 0.0391, step 1, values float32  
Opened 20220612-ino-10.mrc as #17.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0135, step 1, values float32  
Opened 20220612-ino-9.mrc as #17.2, grid size 448,448,448, pixel 0.835, shown
at level 0.00895, step 1, values float32  
Opened 20220612-ino-8.mrc as #17.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0158, step 1, values float32  
Opened 20220612-ino-7.mrc as #17.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0108, step 1, values float32  
Opened 20220612-ino-6.mrc as #17.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0103, step 1, values float32  
Opened 20220612-ino-5.mrc as #17.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0148, step 1, values float32  
Opened 20220612-ino-pub-4.mrc as #17.7, grid size 448,448,448, pixel 0.835,
shown at level 0.0167, step 1, values float32  
Opened 20220612-ino-pub-3.mrc as #17.8, grid size 448,448,448, pixel 0.835,
shown at level 0.0163, step 1, values float32  
Opened 20220612-ino-pub-2.mrc as #17.9, grid size 448,448,448, pixel 0.835,
shown at level 0.0174, step 1, values float32  
Opened 20220612-ino-pub-1.mrc as #17.10, grid size 448,448,448, pixel 0.835,
shown at level 0.0304, step 1, values float32  
Opened 20220623-hex-best-filter.mrc as #18, grid size 448,448,448, pixel
0.835, shown at level 0.00425, step 1, values float32  
Log from Mon Jun 27 19:07:33 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open 20220623-fig1-map-1.cxs

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 0.0813, step 1, values float32  
Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.0519, step 1, values float32  
Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.11, step 1, values float32  
Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 0.117, step 1, values float32  
Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 0.0305, step 1, values float32  
Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 0.00187, step 1, values float32  
Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 0.103, step 1, values float32  
Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.209, step 1, values float32  
Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.124, step 1, values float32  
Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 0.00299, step 1, values float32  
Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at step 1, values float32  
Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 0.0017, step 1, values float32  
Opened 20220612-swr-9.mrc as #16.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0301, step 1, values float32  
Opened 20220612-swr-8.mrc as #16.2, grid size 448,448,448, pixel 0.835, shown
at level 0.0406, step 1, values float32  
Opened 20220612-swr-7.mrc as #16.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0519, step 1, values float32  
Opened 20220612-swr-6.mrc as #16.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0362, step 1, values float32  
Opened 20220612-swr-5.mrc as #16.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0497, step 1, values float32  
Opened 20220612-swr-4.mrc as #16.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0281, step 1, values float32  
Opened 20220612-swr-3.mrc as #16.7, grid size 448,448,448, pixel 0.835, shown
at level 0.0479, step 1, values float32  
Opened 20220601-swr-2.mrc as #16.8, grid size 448,448,448, pixel 0.835, shown
at level 0.0331, step 1, values float32  
Opened 20220612-swr-1.mrc as #16.9, grid size 448,448,448, pixel 0.835, shown
at level 0.0391, step 1, values float32  
Opened 20220612-ino-10.mrc as #17.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0135, step 1, values float32  
Opened 20220612-ino-9.mrc as #17.2, grid size 448,448,448, pixel 0.835, shown
at level 0.00895, step 1, values float32  
Opened 20220612-ino-8.mrc as #17.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0158, step 1, values float32  
Opened 20220612-ino-7.mrc as #17.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0108, step 1, values float32  
Opened 20220612-ino-6.mrc as #17.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0103, step 1, values float32  
Opened 20220612-ino-5.mrc as #17.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0148, step 1, values float32  
Opened 20220612-ino-pub-4.mrc as #17.7, grid size 448,448,448, pixel 0.835,
shown at level 0.0167, step 1, values float32  
Opened 20220612-ino-pub-3.mrc as #17.8, grid size 448,448,448, pixel 0.835,
shown at level 0.0163, step 1, values float32  
Opened 20220612-ino-pub-2.mrc as #17.9, grid size 448,448,448, pixel 0.835,
shown at level 0.0174, step 1, values float32  
Opened 20220612-ino-pub-1.mrc as #17.10, grid size 448,448,448, pixel 0.835,
shown at level 0.0304, step 1, values float32  
Opened 20220623-hex-best-filter.mrc as #18, grid size 448,448,448, pixel
0.835, shown at level 0.00425, step 1, values float32  
Log from Thu Jun 23 20:37:56 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open 20220612-fig1-2.cxs

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 0.0813, step 1, values float32  
Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.0519, step 1, values float32  
Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.11, step 1, values float32  
Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 0.117, step 1, values float32  
Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 0.0305, step 1, values float32  
Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 0.00187, step 1, values float32  
Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 0.103, step 1, values float32  
Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.209, step 1, values float32  
Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.124, step 1, values float32  
Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 0.00299, step 1, values float32  
Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at step 1, values float32  
Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 0.0017, step 1, values float32  
Opened 20220612-swr-9.mrc as #16.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0301, step 1, values float32  
Opened 20220612-swr-8.mrc as #16.2, grid size 448,448,448, pixel 0.835, shown
at level 0.0406, step 1, values float32  
Opened 20220612-swr-7.mrc as #16.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0519, step 1, values float32  
Opened 20220612-swr-6.mrc as #16.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0362, step 1, values float32  
Opened 20220612-swr-5.mrc as #16.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0497, step 1, values float32  
Opened 20220612-swr-4.mrc as #16.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0281, step 1, values float32  
Opened 20220612-swr-3.mrc as #16.7, grid size 448,448,448, pixel 0.835, shown
at level 0.0479, step 1, values float32  
Opened 20220601-swr-2.mrc as #16.8, grid size 448,448,448, pixel 0.835, shown
at level 0.0331, step 1, values float32  
Opened 20220612-swr-1.mrc as #16.9, grid size 448,448,448, pixel 0.835, shown
at level 0.0391, step 1, values float32  
Opened 20220612-ino-10.mrc as #17.1, grid size 448,448,448, pixel 0.835, shown
at level 0.0135, step 1, values float32  
Opened 20220612-ino-9.mrc as #17.2, grid size 448,448,448, pixel 0.835, shown
at level 0.00895, step 1, values float32  
Opened 20220612-ino-8.mrc as #17.3, grid size 448,448,448, pixel 0.835, shown
at level 0.0158, step 1, values float32  
Opened 20220612-ino-7.mrc as #17.4, grid size 448,448,448, pixel 0.835, shown
at level 0.0108, step 1, values float32  
Opened 20220612-ino-6.mrc as #17.5, grid size 448,448,448, pixel 0.835, shown
at level 0.0103, step 1, values float32  
Opened 20220612-ino-5.mrc as #17.6, grid size 448,448,448, pixel 0.835, shown
at level 0.0148, step 1, values float32  
Opened 20220612-ino-pub-4.mrc as #17.7, grid size 448,448,448, pixel 0.835,
shown at level 0.0167, step 1, values float32  
Opened 20220612-ino-pub-3.mrc as #17.8, grid size 448,448,448, pixel 0.835,
shown at level 0.0163, step 1, values float32  
Opened 20220612-ino-pub-2.mrc as #17.9, grid size 448,448,448, pixel 0.835,
shown at level 0.0174, step 1, values float32  
Opened 20220612-ino-pub-1.mrc as #17.10, grid size 448,448,448, pixel 0.835,
shown at level 0.0304, step 1, values float32  
Log from Sun Jun 12 22:13:39 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open 20220612-fig1.cxs

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 0.0813, step 1, values float32  
Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.0519, step 1, values float32  
Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.11, step 1, values float32  
Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 0.117, step 1, values float32  
Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 0.0305, step 1, values float32  
Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 0.00187, step 1, values float32  
Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 0.103, step 1, values float32  
Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.209, step 1, values float32  
Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.124, step 1, values float32  
Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 0.00299, step 1, values float32  
Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at step 1, values float32  
Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 0.0017, step 1, values float32  
Log from Sun Jun 12 18:51:51 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open 20220612-fig1.cxs

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 0.0813, step 1, values float32  
Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.0519, step 1, values float32  
Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.11, step 1, values float32  
Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 0.117, step 1, values float32  
Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 0.0305, step 1, values float32  
Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 0.00187, step 1, values float32  
Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 0.103, step 1, values float32  
Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.209, step 1, values float32  
Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.124, step 1, values float32  
Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 0.00299, step 1, values float32  
Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at step 1, values float32  
Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 0.0017, step 1, values float32  
Log from Sun Jun 12 17:42:31 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  

> open 20220516-ino-f1-1.cxs

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 0.0813, step 1, values float32  
Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.0519, step 1, values float32  
Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.11, step 1, values float32  
Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 0.117, step 1, values float32  
Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 0.0305, step 1, values float32  
Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 0.00187, step 1, values float32  
Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 0.103, step 1, values float32  
Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 0.0601, step 1, values float32  
Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.209, step 1, values float32  
Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.124, step 1, values float32  
Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 0.00299, step 1, values float32  
Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at step 1, values float32  
Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 0.0017, step 1, values float32  
Log from Mon May 16 20:20:38 2022UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open forGeeta/20220419-a5-ours.mrc

Opened 20220419-a5-ours.mrc as #1, grid size 448,448,448, pixel 0.835, shown
at level 7.75e-05, step 2, values float32  

> open forGeeta/20220419-atpase-ours.mrc

Opened 20220419-atpase-ours.mrc as #2, grid size 448,448,448, pixel 0.835,
shown at level 0.000144, step 2, values float32  

> open forGeeta/20220419-chainI-ours.mrc

Opened 20220419-chainI-ours.mrc as #3, grid size 448,448,448, pixel 0.835,
shown at level 0.000122, step 2, values float32  

> open forGeeta/20220419-chainJ-ours.mrc

Opened 20220419-chainJ-ours.mrc as #4, grid size 448,448,448, pixel 0.835,
shown at level 9.61e-05, step 2, values float32  

> open forGeeta/20220419-h2ah2b-ours.mrc

Opened 20220419-h2ah2b-ours.mrc as #5, grid size 448,448,448, pixel 0.835,
shown at level 2.9e-05, step 2, values float32  

> open forGeeta/20220419-h34-ours.mrc

Opened 20220419-h34-ours.mrc as #6, grid size 448,448,448, pixel 0.835, shown
at level 5.89e-05, step 2, values float32  

> open forGeeta/20220419-ies2-ours-1.mrc

Opened 20220419-ies2-ours-1.mrc as #7, grid size 448,448,448, pixel 0.835,
shown at level 3.08e-07, step 2, values float32  

> open forGeeta/20220419-ies2-ours.mrc

Opened 20220419-ies2-ours.mrc as #8, grid size 448,448,448, pixel 0.835, shown
at level 7.93e-05, step 2, values float32  

> open forGeeta/20220419-ies6-ours.mrc

Opened 20220419-ies6-ours.mrc as #9, grid size 448,448,448, pixel 0.835, shown
at level 1.58e-05, step 2, values float32  

> open forGeeta/20220419-rvb1-ours.mrc

Opened 20220419-rvb1-ours.mrc as #10, grid size 448,448,448, pixel 0.835,
shown at level 0.000159, step 2, values float32  

> open forGeeta/20220419-rvb2-ours.mrc

Opened 20220419-rvb2-ours.mrc as #11, grid size 448,448,448, pixel 0.835,
shown at level 0.000168, step 2, values float32  

> volume #1 step 1

> volume #1 level 0.08128

> color #1 #6bbf40 models transparency 0

> color #1 #47bf40 models transparency 0

> color #1 #40bf89 models transparency 0

> color #1 #40bf60 models transparency 0

> color #1 #045e1a models transparency 0

> color #1 #066c20 models transparency 0

> color #1 #045518 models transparency 0

> color #1 #07651f models transparency 0

> color #1 #0e6d26 models transparency 0

> color #1 #0e6925 models transparency 0

> color #1 #0f6925 models transparency 0

> set bgColor white

> lighting soft

> lighting full

> lighting flat

> lighting full

> lighting shadows false

> graphics silhouettes false

> lighting soft

> volume #2 step 1

> volume #2 level 0.05191

> color #1 #69110f models transparency 0

> color #1 #38690f models transparency 0

> color #1 #28690f models transparency 0

> color #1 #22690f models transparency 0

> color #1 #2b690f models transparency 0

> color #1 #205e04 models transparency 0

> color #1 #285d0f models transparency 0

> color #1 #306417 models transparency 0

> color #1 #2a5218 models transparency 0

> color #1 #317412 models transparency 0

> color #1 #2b7708 models transparency 0

> color #1 #44b310 models transparency 0

> color #1 #15b310 models transparency 0

> color #1 #10b39f models transparency 0

> color #1 #10b39c models transparency 0

> color #1 #1daf9a models transparency 0

> color #1 #03574b models transparency 0

> color #1 #327a70 models transparency 0

> color #1 #44b8a7 models transparency 0

> color #2 #ffb2b2 models transparency 0

> color #2 #9d1313 models transparency 0

> color #2 #c63737 models transparency 0

> color #2 #ad1616 models transparency 0

> color #2 #de4e4e models transparency 0

> color #2 #ec0d0d models transparency 0

> color #2 #f70303 models transparency 0

> color #2 #ec1b1b models transparency 0

> color #2 #eb0909 models transparency 0

> color #2 #eb1414 models transparency 0

> color #2 #dc2525 models transparency 0

> color #2 red models transparency 0

> hide #!3 models

> show #!3 models

> volume #3 step 1

> volume #3 level 0.1096

> color #3 grey models transparency 0

> color #3 lightgrey models transparency 0

> volume #4 step 1

> volume #4 level 0.1168

> color #4 lightgrey models transparency 0

> hide #!5 models

> show #!5 models

> volume #5 step 1

> volume #5 level 0.03052

> color #5 hotpink models transparency 0

> color #5 chartreuse models transparency 0

[Repeated 1 time(s)]

> volume #6 step 1

> volume #6 level 0.06005

> color #6 hotpink models transparency 0

> volume #7 step 1

> volume #7 level 0.00103

> volume #7 level 0.001214

> color #7 sandybrown models transparency 0

> volume #7 level 0.001866

> volume #8 step 1

> volume #8 level 0.103

> color #8 sandybrown models transparency 0

[Repeated 1 time(s)]

> volume #9 step 1

> volume #9 level 0.06008

> color #9 yellow models transparency 0

[Repeated 1 time(s)]

> volume #11 step 1

> volume #11 level 0.09035

> color #10 darkblue models transparency 0

> color #10 lightblue models transparency 0

> volume #11 level 0.1244

> volume #10 level 0.0867

> volume #10 step 1

> volume #10 level 0.09367

> color #11 darkblue models transparency 0

> color #11 mediumblue models transparency 0

> color #11 deepskyblue models transparency 0

> color #11 cornflowerblue models transparency 0

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> color #1 lightseagreen models transparency 0

[Repeated 1 time(s)]

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-test-
> lobe1-deleteies2.mrc

Opened 20220516-test-lobe1-deleteies2.mrc as #12, grid size 448,448,448, pixel
0.835, shown at level 5.53e-07, step 2, values float32  

> volume #12 step 1

> volume #12 level 0.002748

> close #12

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-test-
> lobe1-deleteies2-deleteatpaselobe2.mrc

Opened 20220516-test-lobe1-deleteies2-deleteatpaselobe2.mrc as #12, grid size
448,448,448, pixel 0.835, shown at level 2.54e-07, step 2, values float32  

> volume #10 level 0.2087

> volume #12 step 1

> volume #12 level 0.00164

> volume #12 level 0.001847

> color #12 #dda0a0 models transparency 0

> color #12 #e03d3d models transparency 0

> color #12 red models transparency 0

> color #2 red models transparency 0

> volume #12 level 0.002306

> volume #12 level 0.003215

> volume #12 level 0.00299

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/Ino80-complex-1212_ADP_update.pdb

Chain information for Ino80-complex-1212_ADP_update.pdb #13  
---  
Chain | Description  
Q | No description available  
R | No description available  
S | No description available  
T | No description available  
U | No description available  
V | No description available  
W | No description available  
X | No description available  
Y | No description available  
Z | No description available  
  

> hide #!13 models

> show #!13 models

> show cartoons

> hide atoms

> hide #!12 models

> show #!12 models

> hide #!12 models

> show #!12 models

> hide #!13 models

> show #!13 models

> show surfaces

> show cartoons

> hide surfaces

> close #13

> center

Unknown command: center  

> hide #!10 models

> show #!10 models

> color #3 slategrey models transparency 0

> color #4 slategrey models transparency 0

> color #6 grey models transparency 0

> color #6 lightgrey models transparency 0

[Repeated 1 time(s)]

> color #5 grey models transparency 0

> color #5 white models transparency 0

> color #5 pink models transparency 0

> color #5 gold models transparency 0

> color #5 salmon models transparency 0

> color #5 chartreuse models transparency 0

> color #5 lightgreen models transparency 0

> color #5 springgreen models transparency 0

> color #5 turquoise models transparency 0

> color #5 cyan models transparency 0

> color #5 mediumpurple models transparency 0

> color #5 springgreen models transparency 0

> color #5 limegreen models transparency 0

> color #5 lightgreen models transparency 0

> color #5 cyan models transparency 0

> color #5 darkcyan models transparency 0

> color #5 orchid models transparency 0

> color #5 springgreen models transparency 0

> surface dust #1 size 8.35

> surface dust #2 size 8.35

> surface dust #3 size 8.35

> surface dust #4 size 8.35

> surface dust #5 size 8.35

> surface dust #6 size 8.35

> surface dust #7 size 8.35

> surface dust #8 size 8.35

> surface dust #9 size 8.35

> surface dust #10 size 8.35

> surface dust #11 size 8.35

> surface dust #12 size 8.35

> hide #!5 models

> show #!5 models

> color #5 deepskyblue models transparency 0

> color #5 chartreuse models transparency 0

> color #5 springgreen models transparency 0

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view1.png width 1466 height 926 supersample 3 transparentBackground
> true

> turn y 180

[Repeated 1 time(s)]

> turn x 180

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view2.png width 1466 height 926 supersample 3 transparentBackground
> true

> turn x 180

> color #10 cornflowerblue models transparency 0

> color #11 skyblue models transparency 0

> color #12 hotpink models transparency 0

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view1.png width 1466 height 926 supersample 3 transparentBackground
> true

> turn x 180

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view2.png width 1466 height 926 supersample 3 transparentBackground
> true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino-f1-1.cxs
> includeMaps true

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-atpase-
> hex-resampleon1.6-filter.mrc

Opened 20220516-atpase-hex-resampleon1.6-filter.mrc as #13, grid size
448,448,448, pixel 0.835, shown at level 0.000344, step 2, values float32  

> volume #13 step 1

> transparency 50

> volume #13 level 0.001873

> volume showOutlineBox true

> transparency 0

> volume showOutlineBox false

> volume showOutlineBox true

> volume showOutlineBox false

> volume showOutlineBox true

> volume showOutlineBox false

> transparency #13 0

> transparency #13: 0

Missing or invalid "percent" argument: Expected a number  

> transparency #13: 0%

Missing or invalid "percent" argument: Expected a number  

> transparency #13 0

> transparency 0 #13

Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword  

> transparency 0, #13

Missing or invalid "percent" argument: Expected a number  

> transparency 0, s #13

Missing or invalid "percent" argument: Expected a number  

> transparency 15, s #13

Missing or invalid "percent" argument: Expected a number  

> transparency 15, s #13

Missing or invalid "percent" argument: Expected a number  

> transparency 50, s #13

Missing or invalid "percent" argument: Expected a number  

> transparency 50

> transparency 50, #13

Missing or invalid "percent" argument: Expected a number  

> transparency 0

> hide #!13 models

> show #!13 models

> transparency 50, 13

Missing or invalid "percent" argument: Expected a number  

> transparency 50, /#13

Missing or invalid "percent" argument: Expected a number  

> transparency 50, #13

Missing or invalid "percent" argument: Expected a number  

> transparency 50, #1

Missing or invalid "percent" argument: Expected a number  

> color #13 white models transparency 0

> transparency 50

> color #13 #d3d7cf models transparency 0

> transparency 0

> transparency 50

> transparency 0

> color #13 #ef2929 models transparency 0

> transparency 50

> transparency 0

> transparency 50

> transparency 0

[Repeated 6 time(s)]

> transparency 10

> transparency 90

> transparency 100

> transparency 95

> transparency 95, #13

Missing or invalid "percent" argument: Expected a number  

> transparency 95

[Repeated 1 time(s)]

> volume #13 level 0.002435

> transparency #13

Missing or invalid "percent" argument: Expected a number  

> transparency #13 50

> transparency #13 95

> transparency 0

> transparency #13 95

> transparency #13 80

> color #13 #d3d7cf models transparency 0

> transparency #13 80

> color #13 grey models transparency 0

> transparency #13 80

> hide #!1 models

> hide #!2 models

> show #!2 models

> show #!1 models

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/forGeeta/20220419-combine-
> new.pdb

Chain information for 20220419-combine-new.pdb #14  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
D | No description available  
E | No description available  
F | No description available  
H | No description available  
I | No description available  
J | No description available  
Q | No description available  
R | No description available  
S | No description available  
T | No description available  
U | No description available  
V | No description available  
W | No description available  
X | No description available  
Y | No description available  
Z | No description available  
  

> hide atoms

> hide #!1 models

> hide #!2 models

> hide #!12 models

> hide #!11 models

> hide #!10 models

> hide #!9 models

> hide #!8 models

> hide #!7 models

> hide #!6 models

> hide #!5 models

> hide #!3 models

> hide #!4 models

> hide #!14 models

> show #!14 models

> show cartoons

> select #14 /T

3366 atoms, 3407 bonds, 1 pseudobond, 436 residues, 2 models selected  

> cartoon style (#!14 & sel) xsection rectangle modeHelix default

> cartoon style (#!14 & sel & coil) xsection oval

> cartoon style (#!14 & sel) xsection barbell modeHelix default

> cartoon style (#!14 & sel & coil) xsection oval

> cartoon style (#!14 & sel) xsection barbell modeHelix default

> cartoon style (#!14 & sel) modeHelix tube sides 20

> cartoon style (#!14 & sel) xsection oval modeHelix default

> cartoon style (#!14 & sel) xsection rectangle modeHelix default

> ui tool show "Color Actions"

[Repeated 1 time(s)]

> hide #!14 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!14 models

> select #14 /T

3366 atoms, 3407 bonds, 1 pseudobond, 436 residues, 2 models selected  

> hide #!10 models

> show #!10 models

> hide #!10 models

> show #!10 models

> hide #!14 models

> show #!12 models

> volume #13 level 0.002435

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view1.png width 1466 height 899 supersample 3 transparentBackground
> true

> hide #!13 models

> turn x 180

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view2.png width 1466 height 899 supersample 3 transparentBackground
> true

> hide #!12 models

> hide #!11 models

> hide #!10 models

> hide #!9 models

> turn x 180

> hide #14.1 models

> show #!13 models

> transparency #1.1#2.1#3.1#4.1#5.1#6.1#7.1#8.1#13.1 0

> lighting soft

> lighting full

> lighting soft

> hide #!13 models

> hide #13.1 models

> turn x 180

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> show #!13 models

> hide #!13 models

> show #13.1 models

> hide #13.1 models

> show #!14 models

> hide #!14 models

> show #!14 models

> hide #!14 models

> show #14.1 models

> hide #14.1 models

> hide #!14 models

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-atpase-
> resampleon1.6-filter.mrc

Opened 20220516-atpase-resampleon1.6-filter.mrc as #15, grid size 448,448,448,
pixel 0.835, shown at level 3.22e-07, step 2, values float32  

> volume #15 step 1

> volume #15 level 0.0008641

> transparency 90 #15

Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword  

> color #15 lightgrey models transparency 0

> transparency #15 90

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes #15 true

Expected true or false or a keyword  

> graphics silhouettes #15: true

Expected true or false or a keyword  

> graphics silhouettes true #15

Expected a keyword  

> graphics silhouettes #15 true

Expected true or false or a keyword  

> transparency 80 #15

Expected a collection of one of 'All', 'atoms', 'bonds', 'cartoons', 'labels',
'models', 'pseudobonds', 'ribbons', 'rings', or 'surfaces' or a keyword  

> transparency #15 80

> volume #15 level 0.001704

> lighting shadows true intensity 0.5

> lighting shadows false

> lighting soft

> graphics silhouettes true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!11 models

> hide #!12 models

> hide #!13 models

> show #!13 models

> hide #!13 models

> hide #!10 models

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> onlyatpase.png width 1466 height 899 supersample 3 transparentBackground
> true

> hide #!15 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> graphics silhouettes false

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view1.png width 1466 height 899 supersample 3 transparentBackground
> true

> transparency #15 75

> show #!15 models

> transparency #15 50

> graphics silhouettes true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!12 models

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> onlyatpase.png width 1466 height 899 supersample 3

> hide #!15 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> graphics silhouettes false

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!12 models

> show #!15 models

> graphics silhouettes true

> transparency #15 30

> transparency #15 90

> graphics silhouettes false

> graphics silhouettes true

> lighting soft

> show #!12 models

> color #15 grey models transparency 0

> transparency #15 90

> transparency #15 80

> transparency #15 70

> transparency #15 80

> hide #!12 models

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> onlyatpase.png width 1466 height 899 supersample 3 transparentBackground
> true

> hide #!15 models

> show #!12 models

> show #!11 models

> show #!10 models

> show #!9 models

> show #!8 models

> show #!7 models

> show #!6 models

> show #!5 models

> show #!4 models

> show #!3 models

> show #!2 models

> show #!1 models

> graphics silhouettes false

> lighting soft

[Repeated 2 time(s)]

> lighting full

> lighting flat

> lighting shadows true intensity 0.5

> lighting flat

> lighting full

> lighting soft

> graphics silhouettes false

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view1.png width 1466 height 899 supersample 3 transparentBackground
> true

> turn x 180

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino80-ours-
> overall-view2.png width 1466 height 899 supersample 3 transparentBackground
> true

> volume #!1-12 showOutlineBox true

> volume #!1-12 showOutlineBox false

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/newmap/20220516-ino-f1-1.cxs

——— End of log from Mon May 16 20:20:38 2022 ———

opened ChimeraX session  

> hide #!12 models

> show #!15 models

> hide #!6 models

> show #!6 models

> color #6 #ad7fa8 models transparency 0

> color #6 #729fcf models transparency 0

> color #6 #8ae234 models transparency 0

> color #6 #729fcf models transparency 0

> color #6 #e9b96e models transparency 0

> color #6 #888a85 models transparency 0

> color #6 #729fcf models transparency 0

> color #6 #8ae234 models transparency 0

> color #6 #fcaf3e models transparency 0

> color #6 #f57900 models transparency 0

> color #6 #ce5c00 models transparency 0

> color #6 #c4a000 models transparency 0

> color #6 #40babf models transparency 0

> color #6 #4072bf models transparency 0

> color #6 #6d40bf models transparency 0

> color #6 #8f40bf models transparency 0

> color #6 #6040bf models transparency 0

> color #6 #8040bf models transparency 0

> color #6 #be40bf models transparency 0

> color #6 purple models transparency 0

> color #6 mediumpurple models transparency 0

> color #6 magenta models transparency 0

> color #6 aquamarine models transparency 0

> color #6 gold models transparency 0

> color #6 goldenrod models transparency 0

> color #6 salmon models transparency 0

> color #6 darkcyan models transparency 0

> color #6 sandybrown models transparency 0

> color #6 hotpink models transparency 0

[Repeated 1 time(s)]

> color #5 cyan models transparency 0

[Repeated 1 time(s)]

> color #3 lightgrey models transparency 0

[Repeated 1 time(s)]

> color #4 lightgrey models transparency 0

> color #1 forestgreen models transparency 0

> color #15 white models transparency 0

> hide #!15 models

> show #!15 models

> transparency #15 50

> transparency #15 20

> transparency #15 80

> transparency #15 90

> hide #!6 models

> show #!6 models

> color #6 hotpink models transparency 0

[Repeated 1 time(s)]

> color #5 chartreuse models transparency 0

> color #3 #bf4040 models transparency 0

> color #3 slategrey models transparency 0

> color #4 slategrey models transparency 0

> color #10 steelblue models transparency 0

> color #11 skyblue models transparency 0

> color #11 lightblue models transparency 0

> color #11 skyblue models transparency 0

> color #10 deepskyblue models transparency 0

> color #10 steelblue models transparency 0

> hide #!15 models

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-overall-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> show #!15 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-atpase-1.png
> width 1390 height 911 supersample 3

> hide #!15 models

> show #!15 models

> hide #!15 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> hide #!11 models

> show #!11 models

> show #!12 models

> hide #!12 models

> show #!15 models

> hide #!15 models

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> show #!15 models

> turn x 180

[Repeated 1 time(s)]

> turn y 180

[Repeated 1 time(s)]

> turn z 180

[Repeated 1 time(s)]

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> turn x 180

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-atpase-2.png
> width 1390 height 911 supersample 3 transparentBackground true

> hide #!15 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> graphics silhouettes false

> lighting flat

> lighting full

> lighting soft

> lighting simple

> lighting soft

> graphics silhouettes false

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-overall-2.png
> width 1390 height 911 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> show #!15 models

> graphics silhouettes true

> turn x 180

> show #!1 models

> hide #!1 models

> show #!10 models

> hide #!10 models

> turn x 180

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> hide #!15 models

> graphics silhouettes false

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-overall-2.png
> width 1390 height 911 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> show #!15 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-atpase-2.png
> width 1390 height 911 supersample 3 transparentBackground true

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> graphics silhouettes false

> turn x 180

> hide #!15 models

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-overall-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> show #!15 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-atpase-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> hide #!12 models

> graphics silhouettes false

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1.cxs
> includeMaps true

——— End of log from Sun Jun 12 17:42:31 2022 ———

opened ChimeraX session  

> color #10 cornflowerblue models transparency 0

> color #1 lightseagreen models transparency 0

> hide #!15 models

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-overall-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> show #!15 models

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!15 models

> show #!15 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-atpase-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> show #!13 models

> hide #!13 models

> show #!14 models

> hide #!14 models

> hide #!12 models

> graphics silhouettes false

> hide #!15 models

> color #5 springgreen models transparency 0

> color #5 limegreen models transparency 0

> color #5 springgreen models transparency 0

> graphics silhouettes true

> graphics silhouettes false

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-overall-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> show #!15 models

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!15 models

> show #!15 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-atpase-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> hide #!15 models

> show #!1 models

> show #!3 models

> show #!2 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!15 models

> graphics silhouettes false

> turn x 180

> hide #!15 models

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-overall-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> show #!15 models

> hide #!1 models

> hide #!3 models

> hide #!2 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-atpase-1.png
> width 1390 height 911 supersample 3 transparentBackground true

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> graphics silhouettes false

> turn x 180

> hide #!15 models

> show #!15 models

> hide #!15 models

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-overall-2.png
> width 1390 height 911 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> show #!15 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-atpase-2.png
> width 1390 height 911 supersample 3 transparentBackground true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1.cxs
> includeMaps true

——— End of log from Sun Jun 12 18:51:51 2022 ———

opened ChimeraX session  

> hide #!15 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> hide #!6 models

> hide #!5 models

> hide #!4 models

> hide #!3 models

> hide #!2 models

> hide #!1 models

> open
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-8.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-7.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-6.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-5.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-4.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-3.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220601-swr-2.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-1.mrc

Opened 20220612-swr-8.mrc as #16.1, grid size 448,448,448, pixel 0.835, shown
at level 3.99e-06, step 2, values float32  
Opened 20220612-swr-7.mrc as #16.2, grid size 448,448,448, pixel 0.835, shown
at level 5.15e-06, step 2, values float32  
Opened 20220612-swr-6.mrc as #16.3, grid size 448,448,448, pixel 0.835, shown
at level 7.25e-06, step 2, values float32  
Opened 20220612-swr-5.mrc as #16.4, grid size 448,448,448, pixel 0.835, shown
at level 9.93e-07, step 2, values float32  
Opened 20220612-swr-4.mrc as #16.5, grid size 448,448,448, pixel 0.835, shown
at level 9.47e-06, step 2, values float32  
Opened 20220612-swr-3.mrc as #16.6, grid size 448,448,448, pixel 0.835, shown
at level 6.65e-06, step 2, values float32  
Opened 20220601-swr-2.mrc as #16.7, grid size 448,448,448, pixel 0.835, shown
at level 1.09e-05, step 2, values float32  
Opened 20220612-swr-1.mrc as #16.8, grid size 448,448,448, pixel 0.835, shown
at level 5.77e-06, step 2, values float32  

> lighting soft

> graphics silhouettes false

> hide #!16 models

> show #!16 models

> hide #!16.1 models

> hide #!16.2 models

> hide #!16.3 models

> hide #!16.4 models

> hide #!16.5 models

> hide #!16.6 models

> hide #!16.7 models

> hide #!16.8 models

> show #!16.3 models

> volume #16.8 step 1

> volume #16.8 level 0.03559

> volume #16.7 step 1

> volume #16.7 level 0.03217

> volume #16.6 step 1

> volume #16.6 level 0.0401

> volume #16.5 step 1

> volume #16.5 level 0.02418

> volume #16.4 step 1

> volume #16.4 level 0.03246

> volume #16.3 step 1

> volume #16.3 level 0.02736

> volume #16.1 step 1

> volume #16.1 level 0.034

> volume #16.2 step 1

> volume #16.2 level 0.04373

> open
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-9.mrc

Opened 20220612-swr-9.mrc as #17, grid size 448,448,448, pixel 0.835, shown at
level 2.16e-05, step 2, values float32  

> volume #17 step 1

> volume #17 level 0.03597

> volume #17 level 0.04703

> volume #16.8 level 0.0395

> surface dust #16.1 size 8.35

> surface dust #16.2 size 8.35

> surface dust #16.3 size 8.35

> surface dust #16.4 size 8.35

> surface dust #16.5 size 8.35

> surface dust #16.6 size 8.35

> surface dust #16.7 size 8.35

> surface dust #16.8 size 8.35

> surface dust #17 size 8.35

> hide #!16.7 models

> show #!16.7 models

> show #!1 models

> show #!2 models

> hide #!16 models

> show #!3 models

> show #!4 models

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> show #!16 models

> hide #!16.7 models

> show #!16.7 models

> hide #!16.4 models

> show #!16.4 models

> close #16-17#16.1-8

> open
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-9.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-8.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-7.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-6.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-5.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-4.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-3.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220601-swr-2.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-swr-1.mrc

Opened 20220612-swr-9.mrc as #16.1, grid size 448,448,448, pixel 0.835, shown
at level 2.16e-05, step 2, values float32  
Opened 20220612-swr-8.mrc as #16.2, grid size 448,448,448, pixel 0.835, shown
at level 3.99e-06, step 2, values float32  
Opened 20220612-swr-7.mrc as #16.3, grid size 448,448,448, pixel 0.835, shown
at level 5.15e-06, step 2, values float32  
Opened 20220612-swr-6.mrc as #16.4, grid size 448,448,448, pixel 0.835, shown
at level 7.25e-06, step 2, values float32  
Opened 20220612-swr-5.mrc as #16.5, grid size 448,448,448, pixel 0.835, shown
at level 9.93e-07, step 2, values float32  
Opened 20220612-swr-4.mrc as #16.6, grid size 448,448,448, pixel 0.835, shown
at level 9.47e-06, step 2, values float32  
Opened 20220612-swr-3.mrc as #16.7, grid size 448,448,448, pixel 0.835, shown
at level 6.65e-06, step 2, values float32  
Opened 20220601-swr-2.mrc as #16.8, grid size 448,448,448, pixel 0.835, shown
at level 1.09e-05, step 2, values float32  
Opened 20220612-swr-1.mrc as #16.9, grid size 448,448,448, pixel 0.835, shown
at level 5.77e-06, step 2, values float32  

> hide #!16.6 models

> show #!16.6 models

> hide #!16.6 models

> show #!16.6 models

> all step 1

Unknown command: all step 1  

> volume #16.9 step 1

> volume #16.9 level 0.02954

> volume #16.8 step 1

> volume #16.8 level 0.02966

> volume #16.7 step 1

> volume #16.7 level 0.0323

> volume #16.6 step 1

> volume #16.6 level 0.02209

> volume #16.5 step 1

> volume #16.5 level 0.03576

> volume #16.4 step 1

> volume #16.4 level 0.02309

> volume #16.3 step 1

> volume #16.3 level 0.04397

> volume #16.2 step 1

> volume #16.2 level 0.03375

> volume #16.1 step 1

> volume #16.1 level 0.03007

> hide #!16.1 models

> show #!16.1 models

> color #16.7 skyblue models transparency 0

> color #16.6 hotpink models transparency 0

> color #16.5 #ef2929 models transparency 0

> color #16.1 cornflowerblue models transparency 0

> color #16.4 sandybrown models transparency 0

> color #16.3 lightseagreen models transparency 0

> color #16.9 yellow models transparency 0

> color #16.2 slategrey models transparency 0

> color #16.8 springgreen models transparency 0

> surface dust #16.1 size 8.35

> surface dust #16.2 size 8.35

> surface dust #16.3 size 8.35

> surface dust #16.4 size 8.35

> surface dust #16.5 size 8.35

> surface dust #16.6 size 8.35

> surface dust #16.7 size 8.35

> surface dust #16.8 size 8.35

> surface dust #16.9 size 8.35

> volume #16.9 level 0.03915

> volume #16.8 level 0.03309

> volume #16.7 level 0.04789

> volume #16.6 level 0.02806

> volume #16.5 level 0.0497

> volume #16.4 level 0.03619

> volume #16.3 level 0.05186

> volume #16.2 level 0.04063

> color #16.6 springgreen models transparency 0

> color #16.8 hotpink models transparency 0

> surface dust #16.1 size 8.35

> surface dust #16.2 size 8.35

> surface dust #16.3 size 8.35

> surface dust #16.4 size 8.35

> surface dust #16.5 size 8.35

> surface dust #16.6 size 8.35

> surface dust #16.7 size 8.35

> surface dust #16.8 size 8.35

> surface dust #16.9 size 8.35

> hide #!16 models

> show #!16 models

> hide #!16 models

> show #!16 models

> hide #!16 models

> show #!16 models

> hide #!16 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> open
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-10.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-9.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-8.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-7.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-6.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-5.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-
> pub-4.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-
> pub-3.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-
> pub-2.mrc
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-ino-
> pub-1.mrc

Opened 20220612-ino-10.mrc as #17.1, grid size 448,448,448, pixel 0.835, shown
at level 1.02e-05, step 2, values float32  
Opened 20220612-ino-9.mrc as #17.2, grid size 448,448,448, pixel 0.835, shown
at level 5.6e-06, step 2, values float32  
Opened 20220612-ino-8.mrc as #17.3, grid size 448,448,448, pixel 0.835, shown
at level 9.42e-06, step 2, values float32  
Opened 20220612-ino-7.mrc as #17.4, grid size 448,448,448, pixel 0.835, shown
at level 7.96e-06, step 2, values float32  
Opened 20220612-ino-6.mrc as #17.5, grid size 448,448,448, pixel 0.835, shown
at level 4.71e-06, step 2, values float32  
Opened 20220612-ino-5.mrc as #17.6, grid size 448,448,448, pixel 0.835, shown
at level 1.37e-05, step 2, values float32  
Opened 20220612-ino-pub-4.mrc as #17.7, grid size 448,448,448, pixel 0.835,
shown at level 3.9e-06, step 2, values float32  
Opened 20220612-ino-pub-3.mrc as #17.8, grid size 448,448,448, pixel 0.835,
shown at level 4.64e-06, step 2, values float32  
Opened 20220612-ino-pub-2.mrc as #17.9, grid size 448,448,448, pixel 0.835,
shown at level 1.41e-06, step 2, values float32  
Opened 20220612-ino-pub-1.mrc as #17.10, grid size 448,448,448, pixel 0.835,
shown at level 1.94e-06, step 2, values float32  

> volume #17.10 step 1

> volume #17.10 level 0.03039

> volume #17.9 step 1

> volume #17.9 level 0.01739

> volume #17.8 step 1

> volume #17.8 level 0.01629

> volume #17.7 step 1

> volume #17.7 level 0.0167

> volume #17.6 step 1

> volume #17.6 level 0.01476

> volume #17.5 step 1

> volume #17.5 level 0.01031

> volume #17.4 step 1

> volume #17.4 level 0.01081

> volume #17.3 step 1

> volume #17.3 level 0.01577

> volume #17.2 step 1

> volume #17.2 level 0.008955

> volume #17.1 step 1

> volume #17.1 level 0.01353

> hide #!17.1 models

> show #!17.1 models

> color #17.1 springgreen models transparency 0

> hide #!17.2 models

> show #!17.2 models

> color #17.2 hotpink models transparency 0

> hide #!17.3 models

> show #!17.3 models

> color #17.3 lightseagreen models transparency 0

> color #17.5 yellow models transparency 0

> hide #!17.9 models

> show #!17.9 models

> color #17.9 skyblue models transparency 0

> color #17.6 cornflowerblue models transparency 0

> hide #!17.7 models

> show #!17.7 models

> color #17.7 sandybrown models transparency 0

> hide #!17.8 models

> show #!17.8 models

> color #17.7 slategrey models transparency 0

> hide #!17.7 models

> show #!17.7 models

> color #17.7 sandybrown models transparency 0

> color #17.8 slategrey models transparency 0

> color #17.9 slategrey models transparency 0

> color #17.9 skyblue models transparency 0

> color #17.10 red models transparency 0

> hide #!17.4 models

> show #!17.4 models

> color #17.4 slategrey models transparency 0

> surface dust #17.1 size 8.35

> surface dust #17.2 size 8.35

> surface dust #17.3 size 8.35

> surface dust #17.4 size 8.35

> surface dust #17.5 size 8.35

> surface dust #17.6 size 8.35

> surface dust #17.7 size 8.35

> surface dust #17.8 size 8.35

> surface dust #17.9 size 8.35

> surface dust #17.10 size 8.35

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-com-
> map-pub.png width 1390 height 911 supersample 3 transparentBackground true

> hide #!17 models

> show #!16 models

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-com-
> map-swar.png width 1390 height 911 supersample 3 transparentBackground true

> hide #!16 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!9 models

> show #!8 models

> show #!10 models

> show #!11 models

> graphics silhouettes true

> graphics silhouettes false

> show #!16 models

> hide #!16 models

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-com-
> map-our.png width 1390 height 911 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> show #!14 models

> hide #!14 models

> show #!13 models

> hide #!13 models

> show #!12 models

> hide #!12 models

> show #!14 models

> hide #!14 models

> show #!15 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-com-
> map-our-atp.png width 1390 height 911 supersample 3 transparentBackground
> true

> hide #!15 models

> show #!10 models

> hide #!10 models

> show #!3 models

> show #!4 models

> save
> /run/media/hwu/Elements/INO80/hexasome/apo/krios1/20210930-image/newmap/20220612-fig1-2.cxs
> includeMaps true

——— End of log from Sun Jun 12 22:13:39 2022 ———

opened ChimeraX session  

> graphics silhouettes false

> show #!1 models

> show #!2 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!14 models

> hide #!14 models

> show #!15 models

> hide #!15 models

> show #!16 models

> hide #!16 models

> show #!17 models

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!17 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!14 models

> hide #!14 models

> show #!15 models

> hide #!15 models

> open
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/newmap/20220623-hex-
> best-filter.mrc

Opened 20220623-hex-best-filter.mrc as #18, grid size 448,448,448, pixel
0.835, shown at level 0.000101, step 2, values float32  

> volume #18 step 1

> volume #18 level 0.0005485

> volume #18 level 0.004246

> transparency #18 60

> volume #18 color white

> transparency #18 60

> transparency #18 80

> transparency #18 90

> transparency #18 98

[Repeated 1 time(s)]

> turn y 180

> transparency #18 95

> transparency #18 90

> transparency #18 85

> volume #18 style mesh

> volume #18 style image

> volume #18 level -1.11e-17,0 level 9.972e-05,0.8 level 0.01347,1

> volume #18 level -1.11e-17,0 level -1.11e-17,0.7844 level 0.01347,1

> transparency #18 0

> transparency #18 10

> volume #18 color #ffffffe6 color lightgrey color #ffffffe6

[Repeated 1 time(s)]

> volume #18 level 0.0001985,0.375 level -1.11e-17,0.7844 level 0.01347,1

> volume #18 level 0.0006948,0.3438 level -1.11e-17,0.7844 level 0.01347,1

> volume #18 level 0.0007692,0.9219 level -1.11e-17,0.7844 level 0.01347,1

> volume #18 level 0.0007692,0.9219 level -1.11e-17,0.3125 level 0.01347,1

> volume #18 level 0.0008189,0.7656 level -1.11e-17,0.3125 level 0.01347,1

> volume #18 color #ef2929 color lightgrey color #ffffffe6

> volume #18 color #fcaf3e color lightgrey color #ffffffe6

> volume #18 color #fce94f color lightgrey color #ffffffe6

> volume #18 level 0.0004466,0.5625 level -1.11e-17,0.3125 level 0.01347,1

> graphics silhouettes true

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes false

> volume #18 style surface

> transparency #18 80

> graphics silhouettes true

> transparency #18 98

> transparency #18 95

> show #!15 models

> hide #!15 models

> hide #!18 models

> graphics silhouettes false

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/newmap/20220623-ino-
> hex-view-1.png width 1390 height 911 supersample 3 transparentBackground
> true

> hide #!11 models

> hide #!10 models

> hide #!9 models

> hide #!8 models

> hide #!7 models

> hide #!6 models

> hide #!5 models

> hide #!4 models

> hide #!3 models

> hide #!2 models

> hide #!1 models

> show #!18 models

> show #!15 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/newmap/20220623-ino-
> hex-view-1-atp-hextra.png width 1390 height 911 supersample 3
> transparentBackground true

> hide #!15 models

> hide #!18 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> graphics silhouettes false

> turn y 180

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/newmap/20220623-ino-
> hex-view-2.png width 1390 height 911 supersample 3 transparentBackground
> true

[Repeated 1 time(s)]

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> show #!15 models

> show #!18 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/newmap/20220623-ino-
> hex-view-2-atp-hextra.png width 1390 height 911 supersample 3
> transparentBackground true

> hide #!15 models

> hide #!18 models

> show #!16 models

> graphics silhouettes false

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/newmap/20220623-fig1-map-1.cxs
> includeMaps true

——— End of log from Thu Jun 23 20:37:56 2022 ———

opened ChimeraX session  

> hide #!16 models

> show #!17 models

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/newmap/20220627-ino80-ncp-
> comp-1.png width 1390 height 1056 supersample 3 transparentBackground true

> turn y 180

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/newmap/20220627-fig1-map-1.cxs
> includeMaps true

——— End of log from Mon Jun 27 19:07:33 2022 ———

opened ChimeraX session  

> hide #!17 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> hide #!12 models

> show #!13 models

> hide #!13 models

> show #!14 models

> hide #!14 models

> show #!17 models

> show #!16 models

> hide #!16 models

> hide #!17 models

> show #!17 models

> hide #!17 models

> show #!17 models

> hide #!17 models

> show #!17 models

> hide #!17 models

> show #!17 models

> hide #!17 models

> show #!17 models

> hide #!17 models

> turn z 180

[Repeated 1 time(s)]

> turn y 180

> show #!17 models

> turn y 180

> hide #!17 models

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-a5-grappler-
> helix6-redo-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-a5-grappler-
> helix5-redo-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-a5-grappler-
> helix4-redo-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-a5-grappler-
> helix3-redo-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-a5-grappler-
> helix2-redo-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-a5-grappler-
> helix1-redo-filter.mrc

Opened 20220815-inohex-a5-grappler-helix6-redo-filter.mrc as #19.1, grid size
448,448,448, pixel 0.835, shown at level 1.47e-07, step 2, values float32  
Opened 20220815-inohex-a5-grappler-helix5-redo-filter.mrc as #19.2, grid size
448,448,448, pixel 0.835, shown at level 1.89e-07, step 2, values float32  
Opened 20220815-inohex-a5-grappler-helix4-redo-filter.mrc as #19.3, grid size
448,448,448, pixel 0.835, shown at level 2.35e-07, step 2, values float32  
Opened 20220815-inohex-a5-grappler-helix3-redo-filter.mrc as #19.4, grid size
448,448,448, pixel 0.835, shown at level 1.62e-07, step 2, values float32  
Opened 20220815-inohex-a5-grappler-helix2-redo-filter.mrc as #19.5, grid size
448,448,448, pixel 0.835, shown at level 2.34e-07, step 2, values float32  
Opened 20220815-inohex-a5-grappler-helix1-redo-filter.mrc as #19.6, grid size
448,448,448, pixel 0.835, shown at level 2.95e-07, step 2, values float32  

> volume #19.2 step 1

> volume #19.2 level 0.0009786

> volume #19.2 color lightseagreen

[Repeated 1 time(s)]

> volume #19.3 step 1

> volume #19.3 level 0.00144

> volume #19.3 color lightseagreen

> volume #19.4 step 1

> volume #19.4 level 0.001044

> volume #19.4 color lightseagreen

> volume #19.5 step 1

> volume #19.5 level 0.00213

> volume #19.5 color lightseagreen

> volume #19.6 step 1

> volume #19.6 color lightseagreen

> volume #19.6 level 0.00236

> volume #19.1 step 1

> volume #19.1 level 0.001379

> volume #19.1 color lightseagreen

> volume #19.3 level 0.002879

> volume #19.4 level 0.001628

> volume #19.5 level 0.002121

> volume #19.6 level 0.003375

> volume #19.6 level 0.003528

> volume #19.4 level 0.001615

> volume #19.3 level 0.003418

> show #!13 models

> graphics silhouettes true

> hide #!13 models

> show #!15 models

> graphics silhouettes false

> hide #!15 models

> show #!15 models

> hide #!15 models

> show #!14 models

> hide #!14 models

> show #!13 models

> hide #!13 models

> show #!15 models

> hide #!15 models

> show #!14 models

> hide #!14 models

> show #!13 models

> hide #!13 models

> show #!12 models

> hide #!12 models

> show #!18 models

> hide #!18 models

> show #!18 models

> hide #!18 models

> show #!18 models

> hide #!18 models

> transparency #15 90

> show #!15 models

> hide #!15 models

> show #!15 models

> hide #!15 models

> show #!18 models

> hide #!18 models

> show #!18 models

> hide #!18 models

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-f1-map-1.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!19 models

> show #!19 models

> hide #!19 models

> show #!19 models

> hide #!19 models

> show #!15 models

> show #!18 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-f1-map-2.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!15 models

> hide #!18 models

> graphics silhouettes false

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> hide #!12 models

> show #!14 models

> hide #!14 models

> show #!19 models

> turn y 180

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-f1-map-3.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!19 models

> show #!15 models

> show #!18 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-f1-map-4.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!15 models

> hide #!18 models

> graphics silhouettes false

> show #!17 models

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-f1-map-
> ino80ncp.png width 884 height 875 supersample 3 transparentBackground true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-f1-new-
> map.cxs includeMaps true

——— End of log from Mon Aug 15 22:06:05 2022 ———

opened ChimeraX session  

> hide #!17 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!19 models

> hide #!19.1 models

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220815-inohex-a5-grappler-
> helix1-redo-filter-realign-new-filter.mrc

Opened 20220815-inohex-a5-grappler-helix1-redo-filter-realign-new-filter.mrc
as #20, grid size 448,448,448, pixel 0.835, shown at level 1.13e-07, step 2,
values float32  

> volume #20 color lightseagreen

> volume #20 step 1

> volume #20 level 0.0006868

> graphics silhouettes true

> graphics silhouettes false

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220817-inohex-f1-map-1.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!19 models

> hide #!20 models

> show #!15 models

> show #!18 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220817-inohex-f1-map-2.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!15 models

> hide #!18 models

> show #!19 models

> show #!20 models

> volume #19.6 level 0.003441

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> volume #19.3 level 0.002959

> select clear

> graphics silhouettes false

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220817-inohex-f1-map-1.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!19 models

> hide #!20 models

> show #!15 models

> show #!18 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220817-inohex-f1-map-2.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!15 models

> hide #!18 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> hide #!12 models

> show #!19 models

> show #!20 models

> graphics silhouettes false

> turn y 180

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220817-inohex-f1-map-3.png
> width 884 height 875 supersample 3 transparentBackground true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> hide #!5 models

> hide #!6 models

> hide #!7 models

> hide #!8 models

> hide #!9 models

> hide #!10 models

> hide #!11 models

> hide #!19 models

> hide #!20 models

> show #!15 models

> show #!18 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220817-inohex-f1-map-4.png
> width 884 height 875 supersample 3 transparentBackground true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220817-inohex-f1-new-
> map.cxs includeMaps true

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> show #!5 models

> show #!6 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #!10 models

> show #!11 models

> show #!12 models

> hide #!12 models

> graphics silhouettes false

> turn y 180

[Repeated 2 time(s)]

> hide #!15 models

> hide #!18 models

> show #!19 models

> show #!20 models

> volume #19.3 level 0.002508

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220815-figure1/20220817-inohex-f1-new-
> map.cxs includeMaps true

——— End of log from Wed Aug 17 14:15:01 2022 ———

opened ChimeraX session  

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-ies2-highres.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220821-inoncp-
> class3-ies2-lowres-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-dna.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-h2ab.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220821-inoncp-
> class3-h34.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-ies6.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-atpase.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-arp5.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-rvb2.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-rvb1.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-atpase-filter-resampleonhex.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-ncp-longlinker-filter-resampleonhex.mrc

Opened 20220822-inoncp-class3-ies2-highres.mrc as #21.1, grid size
448,448,448, pixel 0.835, shown at level 2e-05, step 2, values float32  
Opened 20220821-inoncp-class3-ies2-lowres-filter.mrc as #21.2, grid size
448,448,448, pixel 0.835, shown at level 1.53e-07, step 2, values float32  
Opened 20220822-inoncp-class3-dna.mrc as #21.3, grid size 448,448,448, pixel
0.835, shown at level 5.85e-05, step 2, values float32  
Opened 20220822-inoncp-class3-h2ab.mrc as #21.4, grid size 448,448,448, pixel
0.835, shown at level 0.000595, step 2, values float32  
Opened 20220821-inoncp-class3-h34.mrc as #21.5, grid size 448,448,448, pixel
0.835, shown at level 0.000398, step 2, values float32  
Opened 20220822-inoncp-class3-ies6.mrc as #21.6, grid size 448,448,448, pixel
0.835, shown at level 9.68e-05, step 2, values float32  
Opened 20220822-inoncp-class3-atpase.mrc as #21.7, grid size 448,448,448,
pixel 0.835, shown at level 7.59e-05, step 2, values float32  
Opened 20220822-inoncp-class3-arp5.mrc as #21.8, grid size 448,448,448, pixel
0.835, shown at level 8.64e-05, step 2, values float32  
Opened 20220822-inoncp-class3-rvb2.mrc as #21.9, grid size 448,448,448, pixel
0.835, shown at level 0.000176, step 2, values float32  
Opened 20220822-inoncp-class3-rvb1.mrc as #21.10, grid size 448,448,448, pixel
0.835, shown at level 0.000145, step 2, values float32  
Opened 20220822-inoncp-class3-atpase-filter-resampleonhex.mrc as #21.11, grid
size 448,448,448, pixel 0.835, shown at level 3.11e-07, step 2, values float32  
Opened 20220822-inoncp-class3-ncp-longlinker-filter-resampleonhex.mrc as
#21.12, grid size 448,448,448, pixel 0.835, shown at level 0.000305, step 2,
values float32  

> hide #!21 models

> show #!21 models

> close #1-20#19.1-6

> volume #21.1 step 1

> volume #21.1 level 0.1217

> volume #21.2 step 1

> volume #21.2 level 0.0005087

> volume #21.3 step 1

> volume #21.3 level 0.577

> volume #21.4 step 1

> volume #21.4 level 0.4268

> volume #21.5 step 1

> volume #21.5 level 1.019

> volume #21.6 step 1

> volume #21.6 level 0.1785

> volume #21.7 step 1

> volume #21.7 level 0.1083

> volume #21.8 step 1

> volume #21.8 level 0.1132

> volume #21.9 step 1

> volume #21.9 level 0.08042

> volume #21.10 step 1

> volume #21.10 level 0.07921

> volume #21.11 step 1

> volume #21.11 level 0.0007336

> volume #21.12 step 1

> volume #21.12 level 0.0008041

> volume #21.1 color sandybrown

[Repeated 1 time(s)]

> volume #21.2 color sandybrown

[Repeated 1 time(s)]

> volume #21.3 color slategrey

[Repeated 1 time(s)]

> volume #21.4 color springgreen

[Repeated 1 time(s)]

> volume #21.5 color hotpink

[Repeated 1 time(s)]

> volume #21.5 level 0.9073

> volume #21.7 color #ef2929

> volume #21.7 level 0.005488

> volume #21.8 color lightseagreen

[Repeated 1 time(s)]

> volume #21.9 color skyblue

[Repeated 1 time(s)]

> volume #21.10 color cornflowerblue

[Repeated 1 time(s)]

> volume #21.11 color white

> volume #21.12 color white

> surface dust #21.1 size 8.35

> surface dust #21.2 size 8.35

> surface dust #21.3 size 8.35

> surface dust #21.4 size 8.35

> surface dust #21.5 size 8.35

> surface dust #21.6 size 8.35

> surface dust #21.7 size 8.35

> surface dust #21.8 size 8.35

> surface dust #21.9 size 8.35

> surface dust #21.10 size 8.35

> volume #21.6 color yellow

[Repeated 1 time(s)]

> volume #21.10 level 0.1789

> volume #21.9 level 0.09647

> volume #21.8 level 0.0911

> volume #21.6 level 0.1559

> volume #21.3 level 0.7404

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> class3-map1.png width 884 height 875 supersample 3 transparentBackground
> true

> hide #!21.1 models

> hide #!21.2 models

> hide #!21.3 models

> hide #!21.4 models

> hide #!21.5 models

> hide #!21.6 models

> hide #!21.7 models

> hide #!21.8 models

> hide #!21.9 models

> hide #!21.10 models

> show #!21.11 models

> show #!21.12 models

> transparency #21.11 90

> transparency #21.12 90

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> class3-map2.png width 884 height 875 supersample 3 transparentBackground
> true

> hide #!21 models

> graphics silhouettes false

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-a5-helix-7-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-a5-helix-6-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-a5-helix-5-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-a5-helix-4-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-a5-helix-3-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-a5-helix-2-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-a5-helix-1-filter.mrc

Opened 20220822-inoncp-class5-a5-helix-7-filter.mrc as #1.1, grid size
448,448,448, pixel 0.835, shown at level 3.89e-07, step 2, values float32  
Opened 20220822-inoncp-class5-a5-helix-6-filter.mrc as #1.2, grid size
448,448,448, pixel 0.835, shown at level 2.07e-07, step 2, values float32  
Opened 20220822-inoncp-class5-a5-helix-5-filter.mrc as #1.3, grid size
448,448,448, pixel 0.835, shown at level 7.96e-08, step 2, values float32  
Opened 20220822-inoncp-class5-a5-helix-4-filter.mrc as #1.4, grid size
448,448,448, pixel 0.835, shown at level 1.12e-07, step 2, values float32  
Opened 20220822-inoncp-class5-a5-helix-3-filter.mrc as #1.5, grid size
448,448,448, pixel 0.835, shown at level 2.53e-08, step 2, values float32  
Opened 20220822-inoncp-class5-a5-helix-2-filter.mrc as #1.6, grid size
448,448,448, pixel 0.835, shown at level 3.14e-07, step 2, values float32  
Opened 20220822-inoncp-class5-a5-helix-1-filter.mrc as #1.7, grid size
448,448,448, pixel 0.835, shown at level 2.44e-07, step 2, values float32  

> hide #!21.11 models

> hide #!21.12 models

> color #1 lightseagreen models transparency 0

[Repeated 1 time(s)]

> volume #1.7 step 1

> volume #1.7 level 0.000839

> volume #1.6 step 1

> volume #1.6 level 0.001509

> volume #1.5 step 1

> volume #1.5 level 0.0006099

> volume #1.4 step 1

> volume #1.4 level 0.0003676

> volume #1.3 step 1

> volume #1.3 level 0.000495

> volume #1.2 step 1

> volume #1.2 level 0.0005157

> volume #1.1 step 1

> volume #1.1 level 0.0005291

> volume #1.2 level 0.001524

> volume #1.3 level 0.0009272

> volume #1.4 level 0.0007841

> volume #1.5 level 0.0009739

> volume #1.7 level 0.001603

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-map-1.png
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-dna.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-h2ab.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-h34.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-ies2-lowres-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-atpase-highres.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-rvb2.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-rvb1.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-ies6.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-arp5.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-ies2-highres.mrc

Image mode RGBA is not supported (L, P, I;16, I;16B, I;16L, I;16S, F, F;32BF,
I, RGB)  

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-ies2-highres.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-dna.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-h2ab.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-h34.mrc

Opened 20220822-inoncp-class3-ies2-highres.mrc as #2.1, grid size 448,448,448,
pixel 0.835, shown at level 2e-05, step 2, values float32  
Opened 20220822-inoncp-class5-dna.mrc as #2.2, grid size 448,448,448, pixel
0.835, shown at level 0.000413, step 2, values float32  
Opened 20220822-inoncp-class5-h2ab.mrc as #2.3, grid size 448,448,448, pixel
0.835, shown at level 0.000124, step 2, values float32  
Opened 20220822-inoncp-class5-h34.mrc as #2.4, grid size 448,448,448, pixel
0.835, shown at level 0.000188, step 2, values float32  

> hide #!2.1 models

> show #!2.1 models

> volume #2.1 step 1

> volume #2.1 level 0.08601

> volume #2.1 color sandybrown

[Repeated 1 time(s)]

> volume #2.2 step 1

> volume #2.2 level 0.9132

> volume #2.2 color slategrey

[Repeated 1 time(s)]

> volume #2.3 step 1

> volume #2.3 level 0.3463

> volume #2.3 color springgreen

[Repeated 1 time(s)]

> volume #2.4 step 1

> volume #2.4 level 0.2984

> volume #2.4 color hotpink

[Repeated 1 time(s)]

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class3-zoomin-1.png
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-ies2-lowres-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-atpase-highres.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-rvb2.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-rvb1.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-ies6.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-arp5.mrc

Image mode RGBA is not supported (L, P, I;16, I;16B, I;16L, I;16S, F, F;32BF,
I, RGB)  

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-rvb2.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-rvb1.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-ies6.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-arp5.mrc

Opened 20220822-inoncp-class5-rvb2.mrc as #3.1, grid size 448,448,448, pixel
0.835, shown at level 0.000133, step 2, values float32  
Opened 20220822-inoncp-class5-rvb1.mrc as #3.2, grid size 448,448,448, pixel
0.835, shown at level 0.000156, step 2, values float32  
Opened 20220822-inoncp-class5-ies6.mrc as #3.3, grid size 448,448,448, pixel
0.835, shown at level 5.69e-05, step 2, values float32  
Opened 20220822-inoncp-class5-arp5.mrc as #3.4, grid size 448,448,448, pixel
0.835, shown at level 0.00014, step 2, values float32  

> close #2.1

> volume #3.1 step 1

> volume #3.1 level 0.09734

> volume #3.1 color skyblue

[Repeated 1 time(s)]

> volume #3.2 step 1

> volume #3.2 level 0.0919

> volume #3.2 color cornflowerblue

[Repeated 1 time(s)]

> volume #3.3 step 1

> volume #3.3 level 0.09387

> volume #3.3 color yellow

[Repeated 1 time(s)]

> volume #3.4 step 1

> volume #3.4 level 0.1425

> volume #3.4 color lightseagreen

[Repeated 1 time(s)]

> undo

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-atpase-highres.mrc

Opened 20220822-inoncp-class5-atpase-highres.mrc as #4, grid size 448,448,448,
pixel 0.835, shown at level 0.000119, step 2, values float32  

> volume #4 step 1

> volume #4 color #ef2929

> volume #4 level 0.02331

> surface dust #1.1 size 8.35

> surface dust #1.2 size 8.35

> surface dust #1.3 size 8.35

> surface dust #1.4 size 8.35

> surface dust #1.5 size 8.35

> surface dust #1.6 size 8.35

> surface dust #1.7 size 8.35

> surface dust #2.2 size 8.35

> surface dust #2.3 size 8.35

> surface dust #2.4 size 8.35

> surface dust #3.1 size 8.35

> surface dust #3.2 size 8.35

> surface dust #3.3 size 8.35

> surface dust #3.4 size 8.35

> surface dust #4 size 8.35

> surface dust #1.1 size 8.35

> surface dust #1.2 size 8.35

> surface dust #1.3 size 8.35

> surface dust #1.4 size 8.35

> surface dust #1.5 size 8.35

> surface dust #1.6 size 8.35

> surface dust #1.7 size 8.35

> surface dust #2.2 size 8.35

> surface dust #2.3 size 8.35

> surface dust #2.4 size 8.35

> surface dust #3.1 size 8.35

> surface dust #3.2 size 8.35

> surface dust #3.3 size 8.35

> surface dust #3.4 size 8.35

> surface dust #4 size 8.35

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> class5-map1.png width 884 height 875 supersample 3 transparentBackground
> true

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-h2ab.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-ncp-longlinker-resampleonhex-filter.mrc
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-atpase-resampleonhex-filter.mrc

Opened 20220822-inoncp-class5-h2ab.mrc as #5.1, grid size 448,448,448, pixel
0.835, shown at level 0.000124, step 2, values float32  
Opened 20220822-inoncp-class5-ncp-longlinker-resampleonhex-filter.mrc as #5.2,
grid size 448,448,448, pixel 0.835, shown at level 0.000208, step 2, values
float32  
Opened 20220822-inoncp-class5-atpase-resampleonhex-filter.mrc as #5.3, grid
size 448,448,448, pixel 0.835, shown at level 4.34e-07, step 2, values float32  

> volume #5.2 step 1

> volume #5.2 level 0.001041

> close #5.1

> volume #5.3 step 1

> volume #5.3 level 0.0003034

> volume #5.2 color white

> volume #5.3 color white

> transparency #5.2 90

> transparency #5.3 90

> surface dust #5.2 size 8.35

> surface dust #5.3 size 8.35

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> class5-map2.png width 884 height 875 supersample 3 transparentBackground
> true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> map.cxs includeMaps true

——— End of log from Tue Aug 23 16:36:43 2022 ———

opened ChimeraX session  

> hide #!5 models

> show #!4 models

> graphics silhouettes false

> show #!3 models

> show #!2 models

> show #!1 models

> open
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220822-inoncp-
> class5-ies2-lowres-filter.mrc

Opened 20220822-inoncp-class5-ies2-lowres-filter.mrc as #6, grid size
448,448,448, pixel 0.835, shown at level 2.65e-07, step 2, values float32  

> volume #6 step 1

> volume #6 level 0.001928

> volume #6 color sandybrown

[Repeated 1 time(s)]

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> map.cxs includeMaps true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> class5-map1.png width 884 height 875 supersample 3 transparentBackground
> true

> graphics silhouettes true

> graphics silhouettes false

> hide #!5.2 models

> select #5.2

2 models selected  

> ~select #5.2

Nothing selected  

> show #!5.2 models

> graphics silhouettes true

> graphics silhouettes false

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220817-figure3/20220823-inoncp-
> map.cxs includeMaps true

[Repeated 1 time(s)]

——— End of log from Tue Aug 23 17:27:59 2022 ———

opened ChimeraX session  

> hide #!6 models

> hide #!5.3 models

> hide #!5.2 models

> hide #!5 models

> hide #!4 models

> hide #!3.4 models

> hide #!3.3 models

> hide #!3.2 models

> hide #!3.1 models

> hide #!3 models

> hide #!2.4 models

> hide #!2.3 models

> hide #!2.2 models

> hide #!2 models

> hide #!1.7 models

> hide #!1.6 models

> hide #!1.5 models

> hide #!1.4 models

> hide #!1.3 models

> hide #!1.2 models

> hide #!1.1 models

> hide #!1 models

> show #!1 models

> show #!1.1 models

> show #!1.2 models

> show #!1.3 models

> show #!1.4 models

> show #!1.5 models

> show #!1.6 models

> show #!1.7 models

> show #!2.2 models

> color #2.2 lightgrey models transparency 0

> color #2.3 cyan models transparency 0

> show #!2.3 models

> show #!2.4 models

> color #2.4 deeppink models transparency 0

> color #1.1 mediumseagreen models transparency 0

> color #1.2 mediumseagreen models transparency 0

> color #1.3 mediumseagreen models transparency 0

> color #1.4 mediumseagreen models transparency 0

> color #1.5 mediumseagreen models transparency 0

> color #1.6 mediumseagreen models transparency 0

> color #1.7 mediumseagreen models transparency 0

> show #!3.1 models

> show #!3.2 models

> show #!3.3 models

> color #3.4 mediumseagreen models transparency 0

> show #!3.4 models

> show #!4 models

> show #!5.2 models

> hide #!5.2 models

> show #!5.3 models

> hide #!5.3 models

> show #!6 models

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220915-figure3/20220915-inoncp-
> class5-map1.png width 884 height 875 supersample 3 transparentBackground
> true

> hide #!1 models

> hide #!2 models

> hide #!6 models

> hide #!4 models

> hide #!3.4 models

> hide #!3.3 models

> hide #!3.2 models

> hide #!3.1 models

> hide #!3 models

> hide #!2.4 models

> hide #!2.3 models

> hide #!2.2 models

> show #!5.2 models

> show #!5.3 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220915-figure3/20220915-inoncp-
> class5-map2.png width 884 height 875 supersample 3 transparentBackground
> true

> hide #!5 models

> show #!21.1 models

> show #!21.2 models

> show #!21.3 models

> show #!21.4 models

> show #!21.5 models

> show #!21.6 models

> show #!21.7 models

> show #!21.8 models

> show #!21.9 models

> show #!21.10 models

> graphics silhouettes false

> color #21.4 deeppink models transparency 0

> color #21.4 cyan models transparency 0

> color #21.5 mediumseagreen models transparency 0

> color #21.5 deeppink models transparency 0

> color #21.3 lightgrey models transparency 0

> color #21.8 mediumseagreen models transparency 0

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220915-figure3/20220915-inoncp-
> class3-map1.png width 884 height 875 supersample 3 transparentBackground
> true

> hide #!21 models

> show #!21.11 models

> show #!21.12 models

> hide #!21.1 models

> hide #!21.2 models

> hide #!21.3 models

> hide #!21.4 models

> hide #!21.5 models

> hide #!21.6 models

> hide #!21.7 models

> hide #!21.8 models

> hide #!21.9 models

> hide #!21.10 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220915-figure3/20220915-inoncp-
> class3-map2.png width 884 height 875 supersample 3 transparentBackground
> true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20220915-figure3/20220915-inoncp-
> map-comp.cxs includeMaps true

——— End of log from Thu Sep 15 23:25:27 2022 ———

opened ChimeraX session  

> hide #!21 models

> show #!2 models

> show #!2.2 models

> show #!2.3 models

> show #!2.4 models

> show #!3.1 models

> show #!3.2 models

> show #!3.3 models

> show #!3.4 models

> show #!4 models

> graphics silhouettes false

> color #2.3 white models transparency 0

> color #2.3 cyan models transparency 0

> color #2.4 white models transparency 0

> color #2.2 slategrey models transparency 0

> show #!1 models

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20221013-f3/20221013-inoncp-
> class5-map-1.png width 884 height 875 supersample 3 transparentBackground
> true

> show #!5 models

> hide #!1 models

> hide #!2 models

> hide #!3 models

> hide #!4 models

> graphics silhouettes true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20221013-f3/20221013-inoncp-
> class5-map-2.png width 884 height 875 supersample 3 transparentBackground
> true

> show #!2 models

> show #!3 models

> show #!4 models

> show #!6 models

> hide #!5 models

> graphics silhouettes false

> show #!1 models

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20221013-f3/20221013-inoncp-
> class5-map-1.png width 884 height 875 supersample 3 transparentBackground
> true

> save
> /run/media/hwu/Elements1/INO80/hexasome/apo/krios1/20210930-image/20221013-f3/20221013-inoncp-
> map.cxs includeMaps true

——— End of log from Thu Oct 13 13:48:09 2022 ———

opened ChimeraX session  

> hide #!1 models

> open
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/20230123-a5/inoncp-
> grappler/20230123-inoncp-a5-grappler-all-filter0.835.mrc

Opened 20230123-inoncp-a5-grappler-all-filter0.835.mrc as #7, grid size
448,448,448, pixel 0.835, shown at level 3.97e-07, step 2, values float32  

> volume #7 step 1

> volume #7 level 0.0004168

> volume #7 color mediumseagreen

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/20230123-figure3/20230123-inoncp-
> map.cxs includeMaps true

——— End of log from Mon Jan 23 22:10:40 2023 ———

opened ChimeraX session  

> save
> /run/media/hwu/Elements2/INO80/hexasome/apo/krios1/20210930-image/20230123-figure3/20230123-inoncp-
> class5-map-1.png width 884 height 875 supersample 3 transparentBackground
> true


===== Log before crash end =====

Log:
UCSF ChimeraX version: 1.3 (2021-12-08)  
© 2016-2021 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  




OpenGL version: 3.3.0 NVIDIA 450.80.02
OpenGL renderer: GeForce GTX 1080/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: Supermicro
Model: SYS-7048GR-TR
OS: CentOS Linux 7 Core
Architecture: 64bit ELF
Virutal Machine: none
CPU: 40 Intel(R) Xeon(R) CPU E5-2630 v4 @ 2.20GHz
Cache Size: 25600 KB
Memory:
	              total        used        free      shared  buff/cache   available
	Mem:           125G         44G        403M        3.8G         80G         76G
	Swap:           31G         68M         31G

Graphics:
	02:00.0 VGA compatible controller [0300]: NVIDIA Corporation GP104 [GeForce GTX 1080] [10de:1b80] (rev a1)	
	Subsystem: eVga.com. Corp. Device [3842:6183]	
	Kernel driver in use: nvidia
Locale: ('en_US', 'UTF-8')
PyQt5 5.15.2, Qt 5.15.2
Installed Packages:
    alabaster: 0.7.12
    appdirs: 1.4.4
    Babel: 2.9.1
    backcall: 0.2.0
    blockdiag: 2.0.1
    certifi: 2021.10.8
    cftime: 1.5.1.1
    charset-normalizer: 2.0.9
    ChimeraX-AddCharge: 1.2.2
    ChimeraX-AddH: 2.1.11
    ChimeraX-AlignmentAlgorithms: 2.0
    ChimeraX-AlignmentHdrs: 3.2
    ChimeraX-AlignmentMatrices: 2.0
    ChimeraX-Alignments: 2.2.3
    ChimeraX-AlphaFold: 1.0
    ChimeraX-AltlocExplorer: 1.0.1
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Arrays: 1.0
    ChimeraX-Atomic: 1.31
    ChimeraX-AtomicLibrary: 4.2
    ChimeraX-AtomSearch: 2.0
    ChimeraX-AtomSearchLibrary: 1.0
    ChimeraX-AxesPlanes: 2.0
    ChimeraX-BasicActions: 1.1
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 2.0
    ChimeraX-BondRot: 2.0
    ChimeraX-BugReporter: 1.0
    ChimeraX-BuildStructure: 2.6.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.1
    ChimeraX-ButtonPanel: 1.0
    ChimeraX-CageBuilder: 1.0
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.2
    ChimeraX-ChemGroup: 2.0
    ChimeraX-Clashes: 2.2.2
    ChimeraX-Clipper: 0.17.0
    ChimeraX-ColorActions: 1.0
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5
    ChimeraX-CommandLine: 1.1.5
    ChimeraX-ConnectStructure: 2.0
    ChimeraX-Contacts: 1.0
    ChimeraX-Core: 1.3
    ChimeraX-CoreFormats: 1.1
    ChimeraX-coulombic: 1.3.2
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0
    ChimeraX-DataFormats: 1.2.2
    ChimeraX-Dicom: 1.0
    ChimeraX-DistMonitor: 1.1.5
    ChimeraX-DistUI: 1.0
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ExperimentalCommands: 1.0
    ChimeraX-FileHistory: 1.0
    ChimeraX-FunctionKey: 1.0
    ChimeraX-Geometry: 1.1
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.1
    ChimeraX-Hbonds: 2.1.2
    ChimeraX-Help: 1.2
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.1
    ChimeraX-ISOLDE: 1.3
    ChimeraX-ItemsInspection: 1.0
    ChimeraX-Label: 1.1
    ChimeraX-LinuxSupport: 1.0
    ChimeraX-ListInfo: 1.1.1
    ChimeraX-Log: 1.1.4
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.8.1
    ChimeraX-Map: 1.1
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0
    ChimeraX-MapFilter: 2.0
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1
    ChimeraX-Markers: 1.0
    ChimeraX-Mask: 1.0
    ChimeraX-MatchMaker: 2.0.4
    ChimeraX-MDcrds: 2.6
    ChimeraX-MedicalToolbar: 1.0.1
    ChimeraX-Meeting: 1.0
    ChimeraX-MLP: 1.1
    ChimeraX-mmCIF: 2.4
    ChimeraX-MMTF: 2.1
    ChimeraX-Modeller: 1.2.6
    ChimeraX-ModelPanel: 1.2.1
    ChimeraX-ModelSeries: 1.0
    ChimeraX-Mol2: 2.0
    ChimeraX-Morph: 1.0
    ChimeraX-MouseModes: 1.1
    ChimeraX-Movie: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nucleotides: 2.0.2
    ChimeraX-OpenCommand: 1.7
    ChimeraX-PDB: 2.6.5
    ChimeraX-PDBBio: 1.0
    ChimeraX-PDBLibrary: 1.0.2
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.0.1
    ChimeraX-PubChem: 2.1
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1
    ChimeraX-RemoteControl: 1.0
    ChimeraX-ResidueFit: 1.0
    ChimeraX-RestServer: 1.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 2.0.1
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.4.6
    ChimeraX-Shape: 1.0.1
    ChimeraX-Shell: 1.0
    ChimeraX-Shortcuts: 1.1
    ChimeraX-ShowAttr: 1.0
    ChimeraX-ShowSequences: 1.0
    ChimeraX-SideView: 1.0
    ChimeraX-Smiles: 2.1
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.6.1
    ChimeraX-STL: 1.0
    ChimeraX-Storm: 1.0
    ChimeraX-Struts: 1.0
    ChimeraX-Surface: 1.0
    ChimeraX-SwapAA: 2.0
    ChimeraX-SwapRes: 2.1
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.1
    ChimeraX-ToolshedUtils: 1.2
    ChimeraX-Tug: 1.0
    ChimeraX-UI: 1.13.7
    ChimeraX-uniprot: 2.2
    ChimeraX-UnitCell: 1.0
    ChimeraX-ViewDockX: 1.0.1
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0
    ChimeraX-WebServices: 1.0
    ChimeraX-Zone: 1.0
    colorama: 0.4.4
    cxservices: 1.1
    cycler: 0.11.0
    Cython: 0.29.24
    decorator: 5.1.0
    distro: 1.6.0
    docutils: 0.17.1
    filelock: 3.0.12
    funcparserlib: 0.3.6
    grako: 3.16.5
    h5py: 3.6.0
    html2text: 2020.1.16
    idna: 3.3
    ihm: 0.21
    imagecodecs: 2021.4.28
    imagesize: 1.3.0
    ipykernel: 5.5.5
    ipython: 7.23.1
    ipython-genutils: 0.2.0
    jedi: 0.18.0
    Jinja2: 3.0.1
    jupyter-client: 6.1.12
    jupyter-core: 4.9.1
    kiwisolver: 1.3.2
    line-profiler: 3.3.0
    lxml: 4.6.3
    lz4: 3.1.3
    MarkupSafe: 2.0.1
    matplotlib: 3.4.3
    matplotlib-inline: 0.1.3
    msgpack: 1.0.2
    netCDF4: 1.5.7
    networkx: 2.6.3
    numexpr: 2.8.0
    numpy: 1.21.2
    openvr: 1.16.801
    packaging: 21.3
    ParmEd: 3.2.0
    parso: 0.8.3
    pexpect: 4.8.0
    pickleshare: 0.7.5
    Pillow: 8.3.2
    pip: 21.2.4
    pkginfo: 1.7.1
    prompt-toolkit: 3.0.23
    psutil: 5.8.0
    ptyprocess: 0.7.0
    pycollada: 0.7.1
    pydicom: 2.1.2
    Pygments: 2.10.0
    PyOpenGL: 3.1.5
    PyOpenGL-accelerate: 3.1.5
    pyparsing: 3.0.6
    PyQt5-commercial: 5.15.2
    PyQt5-sip: 12.8.1
    PyQtWebEngine-commercial: 5.15.2
    python-dateutil: 2.8.2
    pytz: 2021.3
    pyzmq: 22.3.0
    qtconsole: 5.1.1
    QtPy: 1.11.3
    RandomWords: 0.3.0
    requests: 2.26.0
    scipy: 1.7.1
    setuptools: 57.5.0
    sfftk-rw: 0.7.1
    six: 1.16.0
    snowballstemmer: 2.2.0
    sortedcontainers: 2.4.0
    Sphinx: 4.2.0
    sphinx-autodoc-typehints: 1.12.0
    sphinxcontrib-applehelp: 1.0.2
    sphinxcontrib-blockdiag: 2.0.0
    sphinxcontrib-devhelp: 1.0.2
    sphinxcontrib-htmlhelp: 2.0.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 1.0.3
    sphinxcontrib-serializinghtml: 1.1.5
    suds-jurko: 0.6
    tables: 3.6.1
    tifffile: 2021.4.8
    tinyarray: 1.2.3
    tornado: 6.1
    traitlets: 5.1.1
    urllib3: 1.26.7
    wcwidth: 0.2.5
    webcolors: 1.11.1
    wheel: 0.37.0
    wheel-filename: 1.3.0

Change History (2)

comment:1 by Eric Pettersen, 3 years ago

Component:	Unassigned → Input/Output
Owner:	set to Tom Goddard
Platform:	→ all
Project:	→ ChimeraX
Status:	new → assigned
Summary:	ChimeraX bug report submission → Crash saving image

comment:2 by Eric Pettersen, 3 years ago

Resolution:	→ can't reproduce
Status:	assigned → closed

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