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#19798 closed defect (can't reproduce)

glClear: invalid framebuffer operation on statusbar expose

Reported by:	jflecken@…	Owned by:	Tom Goddard
Priority:	normal	Milestone:
Component:	Graphics	Version:
Keywords:		Cc:
Blocked By:		Blocking:
Notify when closed:		Platform:	all
Project:	ChimeraX

Description (last modified by Eric Pettersen)

The following bug report has been submitted:
Platform:        macOS-26.2-arm64-arm-64bit
ChimeraX Version: 1.10 (2025-06-26 08:57:52 UTC)
Description
Replace this text with list of actions that caused this problem to occur

Log:
UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open /Users/jamesfleckenstein/Downloads/all-models.cxs format session

Log from Wed Jan 7 13:23:09 2026UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-maps-
> aligned_1.cxs

Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc as #1.1, grid size
320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 0 as #1.3.1, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 1 as #1.3.2, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 2 as #1.3.3, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 3 as #1.3.4, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 4 as #1.3.5, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 5 as #1.3.6, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 6 as #1.3.7, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 7 as #1.3.8, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 8 as #1.3.9, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 9 as #1.3.10, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 10 as #1.3.11, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc masked as #1.4,
grid size 65,50,86, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc as #2.1, grid size
320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 0 as #2.3.1, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 1 as #2.3.2, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 2 as #2.3.3, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 3 as #2.3.4, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 4 as #2.3.5, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 5 as #2.3.6, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 6 as #2.3.7, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 7 as #2.3.8, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 8 as #2.3.9, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 9 as #2.3.10, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 10 as #2.3.11, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc masked as #2.4,
grid size 65,49,89, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc masked gaussian as
#2.5, grid size 65,49,89, pixel 0.928, shown at level 0.729, step 1, values
float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 0 as #3.2.1, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 1 as #3.2.2, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 2 as #3.2.3, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 3 as #3.2.4, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 4 as #3.2.5, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 5 as #3.2.6, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 6 as #3.2.7, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 7 as #3.2.8, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 8 as #3.2.9, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc masked as #3.4,
grid size 78,80,66, pixel 0.928, shown at level 0.52, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc masked gaussian as
#3.5, grid size 78,80,66, pixel 0.928, shown at level 0.532, step 1, values
float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc as #3.6, grid size
320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 as #4.1, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian as #4.3, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 0 as #4.4.1, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 1 as #4.4.2, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 2 as #4.4.3, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 3 as #4.4.4, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 4 as #4.4.5, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 5 as #4.4.6, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 6 as #4.4.7, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 7 as #4.4.8, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 8 as #4.4.9, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 9 as #4.4.10, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 10 as #4.4.11, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened cryosparc_P6_J1626_007_volume_map_sharp.mrc as #4.5, grid size
356,356,356, pixel 0.86, shown at level 0.0747, step 1, values float32  
Opened cryosparc_P6_J1599_004_volume_map_sharp_resampled.mrc as #4.6, grid
size 356,356,356, pixel 0.86, shown at level 0.225, step 1, values float32  
Opened cryosparc_P6_J1295_002_volume_map_sharp_resampled.mrc as #4.7, grid
size 356,356,356, pixel 0.86, shown at level 0.229, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 0 as #4.8.1, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 1 as #4.8.2, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 2 as #4.8.3, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 3 as #4.8.4, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 4 as #4.8.5, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 5 as #4.8.6, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 6 as #4.8.7, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 7 as #4.8.8, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 8 as #4.8.9, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 9 as #4.8.10, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian as #4.9, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 0 as #4.10.1, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 1 as #4.10.2, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 2 as #4.10.3, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 3 as #4.10.4, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 4 as #4.10.5, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 5 as #4.10.6, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 6 as #4.10.7, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 7 as #4.10.8, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 8 as #4.10.9, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 9 as #4.10.10, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 as #4.11, grid size 356,356,356,
pixel 0.86, shown at level 17.6, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked as #4.12, grid size
84,78,83, pixel 0.86, shown at level 12.5, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked gaussian as #4.13, grid
size 84,78,83, pixel 0.86, shown at level 10.1, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked gaussian as #4.14, grid
size 84,78,83, pixel 0.86, shown at level 2.79, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc as #5.1, grid size
320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 0 as #5.3.1, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 1 as #5.3.2, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 2 as #5.3.3, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 3 as #5.3.4, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 4 as #5.3.5, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 5 as #5.3.6, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 6 as #5.3.7, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 7 as #5.3.8, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 8 as #5.3.9, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 9 as #5.3.10, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 10 as #5.3.11, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc as #6.1, grid size
320,320,320, pixel 0.938, shown at level 0.152, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian as #6.3,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 0 as
#6.4.1, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 1 as
#6.4.2, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 2 as
#6.4.3, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 3 as
#6.4.4, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 4 as
#6.4.5, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 5 as
#6.4.6, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 6 as
#6.4.7, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 7 as
#6.4.8, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 8 as
#6.4.9, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 9 as
#6.4.10, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Log from Wed Jan 7 13:06:56 2026UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-maps-
> aligned_Fig4-edit2.cxs

Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc as #1, grid size
320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc as #2, grid size
320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc as #3, grid size
320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc as #5, grid size
320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc as #6, grid size
320,320,320, pixel 0.938, shown at level 0.152, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian as #13, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian as #14,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 0 as #18.1, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 1 as #18.2, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 2 as #18.3, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 3 as #18.4, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 4 as #18.5, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 5 as #18.6, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 6 as #18.7, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 7 as #18.8, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 8 as #18.9, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 9 as #18.10, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 10 as #18.11, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 0 as #20.1, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 1 as #20.2, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 2 as #20.3, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 3 as #20.4, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 4 as #20.5, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 5 as #20.6, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 6 as #20.7, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 7 as #20.8, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 8 as #20.9, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 9 as #20.10, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 10 as #20.11, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 0 as #17.1, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 1 as #17.2, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 2 as #17.3, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 3 as #17.4, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 4 as #17.5, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 5 as #17.6, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 6 as #17.7, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 7 as #17.8, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 8 as #17.9, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 9 as #17.10, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 10 as #17.11, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 0 as #15.1, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 1 as #15.2, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 2 as #15.3, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 3 as #15.4, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 4 as #15.5, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 5 as #15.6, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 6 as #15.7, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 7 as #15.8, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 8 as #15.9, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 0 as #19.1, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 1 as #19.2, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 2 as #19.3, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 3 as #19.4, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 4 as #19.5, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 5 as #19.6, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 6 as #19.7, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 7 as #19.8, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 8 as #19.9, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 9 as #19.10, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 10 as #19.11, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 0 as #21.1,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 1 as #21.2,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 2 as #21.3,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 3 as #21.4,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 4 as #21.5,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 5 as #21.6,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 6 as #21.7,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 7 as #21.8,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 8 as #21.9,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 9 as
#21.10, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 as #4, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened cryosparc_P6_J1626_007_volume_map_sharp.mrc as #24, grid size
356,356,356, pixel 0.86, shown at level 0.0747, step 1, values float32  
Opened cryosparc_P6_J1599_004_volume_map_sharp_resampled.mrc as #25, grid size
356,356,356, pixel 0.86, shown at level 0.225, step 1, values float32  
Opened cryosparc_P6_J1295_002_volume_map_sharp_resampled.mrc as #26, grid size
356,356,356, pixel 0.86, shown at level 0.229, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 0 as #27.1, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 1 as #27.2, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 2 as #27.3, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 3 as #27.4, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 4 as #27.5, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 5 as #27.6, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 6 as #27.7, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 7 as #27.8, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 8 as #27.9, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 9 as #27.10, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian as #28, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 0 as #29.1, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 1 as #29.2, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 2 as #29.3, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 3 as #29.4, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 4 as #29.5, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 5 as #29.6, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 6 as #29.7, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 7 as #29.8, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 8 as #29.9, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 9 as #29.10, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc masked as #30, grid
size 78,80,66, pixel 0.928, shown at level 0.52, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 as #31, grid size 356,356,356,
pixel 0.86, shown at level 17.6, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked as #32, grid size 84,78,83,
pixel 0.86, shown at level 12.5, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked gaussian as #33, grid size
84,78,83, pixel 0.86, shown at level 10.1, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked gaussian as #34, grid size
84,78,83, pixel 0.86, shown at level 2.79, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc masked as #35, grid
size 65,50,86, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc masked as #36, grid
size 65,49,89, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc masked gaussian as
#37, grid size 78,80,66, pixel 0.928, shown at level 0.532, step 1, values
float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc masked gaussian as
#38, grid size 65,50,86, pixel 0.928, shown at level 0.578, step 1, values
float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc masked gaussian as
#39, grid size 65,49,89, pixel 0.928, shown at level 0.729, step 1, values
float32  
Log from Wed Dec 10 17:24:00 2025UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open C:\\\Users\\\David\\\Documents\\\lab\\\Berndsen\\\EatA\\\AAA_final-
> sessions\\\all-maps-aligned_Fig4-edit2.cxs

Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc as #1, grid size
320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc as #2, grid size
320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc as #3, grid size
320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc as #5, grid size
320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc as #6, grid size
320,320,320, pixel 0.938, shown at level 0.152, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian as #13, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian as #14,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 0 as #18.1, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 1 as #18.2, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 2 as #18.3, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 3 as #18.4, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 4 as #18.5, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 5 as #18.6, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 6 as #18.7, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 7 as #18.8, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 8 as #18.9, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 9 as #18.10, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 10 as #18.11, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 0 as #20.1, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 1 as #20.2, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 2 as #20.3, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 3 as #20.4, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 4 as #20.5, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 5 as #20.6, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 6 as #20.7, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 7 as #20.8, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 8 as #20.9, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 9 as #20.10, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 10 as #20.11, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 0 as #17.1, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 1 as #17.2, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 2 as #17.3, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 3 as #17.4, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 4 as #17.5, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 5 as #17.6, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 6 as #17.7, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 7 as #17.8, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 8 as #17.9, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 9 as #17.10, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 10 as #17.11, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 0 as #15.1, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 1 as #15.2, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 2 as #15.3, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 3 as #15.4, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 4 as #15.5, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 5 as #15.6, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 6 as #15.7, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 7 as #15.8, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 8 as #15.9, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 0 as #19.1, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 1 as #19.2, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 2 as #19.3, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 3 as #19.4, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 4 as #19.5, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 5 as #19.6, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 6 as #19.7, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 7 as #19.8, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 8 as #19.9, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 9 as #19.10, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 10 as #19.11, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 0 as #21.1,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 1 as #21.2,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 2 as #21.3,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 3 as #21.4,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 4 as #21.5,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 5 as #21.6,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 6 as #21.7,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 7 as #21.8,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 8 as #21.9,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 9 as
#21.10, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 as #4, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened cryosparc_P6_J1626_007_volume_map_sharp.mrc as #24, grid size
356,356,356, pixel 0.86, shown at level 0.0747, step 1, values float32  
Opened cryosparc_P6_J1599_004_volume_map_sharp_resampled.mrc as #25, grid size
356,356,356, pixel 0.86, shown at level 0.225, step 1, values float32  
Opened cryosparc_P6_J1295_002_volume_map_sharp_resampled.mrc as #26, grid size
356,356,356, pixel 0.86, shown at level 0.229, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 0 as #27.1, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 1 as #27.2, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 2 as #27.3, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 3 as #27.4, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 4 as #27.5, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 5 as #27.6, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 6 as #27.7, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 7 as #27.8, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 8 as #27.9, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 9 as #27.10, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian as #28, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 0 as #29.1, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 1 as #29.2, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 2 as #29.3, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 3 as #29.4, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 4 as #29.5, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 5 as #29.6, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 6 as #29.7, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 7 as #29.8, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 8 as #29.9, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 9 as #29.10, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc masked as #30, grid
size 78,80,66, pixel 0.928, shown at level 0.52, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 as #31, grid size 356,356,356,
pixel 0.86, shown at level 17.6, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked as #32, grid size 84,78,83,
pixel 0.86, shown at level 12.5, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked gaussian as #33, grid size
84,78,83, pixel 0.86, shown at level 10.1, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 masked gaussian as #34, grid size
84,78,83, pixel 0.86, shown at level 2.79, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc masked as #35, grid
size 65,50,86, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc masked as #36, grid
size 65,49,89, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc masked gaussian as
#37, grid size 78,80,66, pixel 0.928, shown at level 0.532, step 1, values
float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc masked gaussian as
#38, grid size 65,50,86, pixel 0.928, shown at level 0.578, step 1, values
float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc masked gaussian as
#39, grid size 65,49,89, pixel 0.928, shown at level 0.729, step 1, values
float32  
Log from Wed Nov 26 13:25:16 2025UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open C:\\\Users\\\David\\\Documents\\\lab\\\Berndsen\\\EatA\\\AAA_final-
> sessions\\\all-maps-aligned_Fig4-edit2.cxs

Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc as #1, grid size
320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc as #2, grid size
320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc as #3, grid size
320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc as #5, grid size
320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc as #6, grid size
320,320,320, pixel 0.938, shown at level 0.152, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian as #13, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian as #14,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 0 as #18.1, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 1 as #18.2, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 2 as #18.3, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 3 as #18.4, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 4 as #18.5, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 5 as #18.6, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 6 as #18.7, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 7 as #18.8, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 8 as #18.9, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 9 as #18.10, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 10 as #18.11, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 0 as #20.1, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 1 as #20.2, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 2 as #20.3, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 3 as #20.4, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 4 as #20.5, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 5 as #20.6, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 6 as #20.7, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 7 as #20.8, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 8 as #20.9, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 9 as #20.10, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 10 as #20.11, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 0 as #17.1, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 1 as #17.2, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 2 as #17.3, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 3 as #17.4, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 4 as #17.5, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 5 as #17.6, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 6 as #17.7, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 7 as #17.8, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 8 as #17.9, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 9 as #17.10, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 10 as #17.11, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 0 as #15.1, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 1 as #15.2, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 2 as #15.3, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 3 as #15.4, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 4 as #15.5, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 5 as #15.6, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 6 as #15.7, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 7 as #15.8, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 8 as #15.9, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 0 as #19.1, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 1 as #19.2, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 2 as #19.3, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 3 as #19.4, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 4 as #19.5, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 5 as #19.6, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 6 as #19.7, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 7 as #19.8, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 8 as #19.9, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 9 as #19.10, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 10 as #19.11, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 0 as #21.1,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 1 as #21.2,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 2 as #21.3,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 3 as #21.4,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 4 as #21.5,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 5 as #21.6,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 6 as #21.7,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 7 as #21.8,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 8 as #21.9,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 9 as
#21.10, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 as #4, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened cryosparc_P6_J1626_007_volume_map_sharp.mrc as #24, grid size
356,356,356, pixel 0.86, shown at level 0.0747, step 1, values float32  
Opened cryosparc_P6_J1599_004_volume_map_sharp_resampled.mrc as #25, grid size
356,356,356, pixel 0.86, shown at level 0.225, step 1, values float32  
Opened cryosparc_P6_J1295_002_volume_map_sharp_resampled.mrc as #26, grid size
356,356,356, pixel 0.86, shown at level 0.229, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 0 as #27.1, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 1 as #27.2, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 2 as #27.3, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 3 as #27.4, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 4 as #27.5, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 5 as #27.6, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 6 as #27.7, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 7 as #27.8, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 8 as #27.9, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 9 as #27.10, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian as #28, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 0 as #29.1, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 1 as #29.2, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 2 as #29.3, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 3 as #29.4, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 4 as #29.5, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 5 as #29.6, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 6 as #29.7, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 7 as #29.8, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 8 as #29.9, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 9 as #29.10, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Log from Mon Nov 17 16:44:16 2025UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open C:\\\Users\\\David\\\Documents\\\lab\\\Berndsen\\\EatA\\\AAA_final-
> sessions\\\all-maps-aligned_Fig4-edit.cxs

Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc as #1, grid size
320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc as #2, grid size
320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc as #3, grid size
320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc as #5, grid size
320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc as #6, grid size
320,320,320, pixel 0.938, shown at level 0.152, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian as #13, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian as #14,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 0 as #18.1, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 1 as #18.2, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 2 as #18.3, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 3 as #18.4, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 4 as #18.5, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 5 as #18.6, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 6 as #18.7, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 7 as #18.8, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 8 as #18.9, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 9 as #18.10, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 10 as #18.11, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 0 as #20.1, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 1 as #20.2, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 2 as #20.3, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 3 as #20.4, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 4 as #20.5, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 5 as #20.6, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 6 as #20.7, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 7 as #20.8, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 8 as #20.9, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 9 as #20.10, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 10 as #20.11, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 0 as #17.1, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 1 as #17.2, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 2 as #17.3, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 3 as #17.4, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 4 as #17.5, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 5 as #17.6, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 6 as #17.7, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 7 as #17.8, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 8 as #17.9, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 9 as #17.10, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 10 as #17.11, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 0 as #15.1, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 1 as #15.2, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 2 as #15.3, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 3 as #15.4, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 4 as #15.5, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 5 as #15.6, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 6 as #15.7, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 7 as #15.8, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 8 as #15.9, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 0 as #19.1, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 1 as #19.2, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 2 as #19.3, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 3 as #19.4, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 4 as #19.5, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 5 as #19.6, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 6 as #19.7, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 7 as #19.8, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 8 as #19.9, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 9 as #19.10, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 10 as #19.11, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 0 as #21.1,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 1 as #21.2,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 2 as #21.3,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 3 as #21.4,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 4 as #21.5,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 5 as #21.6,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 6 as #21.7,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 7 as #21.8,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 8 as #21.9,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 9 as
#21.10, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 as #4, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened cryosparc_P6_J1626_007_volume_map_sharp.mrc as #24, grid size
356,356,356, pixel 0.86, shown at level 0.0747, step 1, values float32  
Opened cryosparc_P6_J1599_004_volume_map_sharp_resampled.mrc as #25, grid size
356,356,356, pixel 0.86, shown at level 0.225, step 1, values float32  
Opened cryosparc_P6_J1295_002_volume_map_sharp_resampled.mrc as #26, grid size
356,356,356, pixel 0.86, shown at level 0.229, step 1, values float32  
Log from Sun Nov 16 18:26:26 2025UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open C:\\\Users\\\David\\\Documents\\\lab\\\Berndsen\\\EatA\\\AAA_final-
> sessions\\\all-maps-aligned_Fig4-edit.cxs

restore_snapshot for "Volume" returned None  

restore_snapshot for "VolumeSurface" returned None  

Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc as #1, grid size
320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc as #2, grid size
320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc as #3, grid size
320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc as #5, grid size
320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc as #6, grid size
320,320,320, pixel 0.938, shown at level 0.152, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian as #13, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian as #14,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 0 as #18.1, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 1 as #18.2, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 2 as #18.3, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 3 as #18.4, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 4 as #18.5, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 5 as #18.6, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 6 as #18.7, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 7 as #18.8, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 8 as #18.9, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 9 as #18.10, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc 10 as #18.11, grid
size 320,320,320, pixel 0.928, shown at level 1.09, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 0 as #20.1, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 1 as #20.2, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 2 as #20.3, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 3 as #20.4, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 4 as #20.5, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 5 as #20.6, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 6 as #20.7, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 7 as #20.8, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 8 as #20.9, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 9 as #20.10, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc 10 as #20.11, grid
size 320,320,320, pixel 0.938, shown at level 0.192, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 0 as #17.1, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 1 as #17.2, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 2 as #17.3, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 3 as #17.4, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 4 as #17.5, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 5 as #17.6, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 6 as #17.7, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 7 as #17.8, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 8 as #17.9, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 9 as #17.10, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc 10 as #17.11, grid
size 320,320,320, pixel 0.928, shown at level 1.13, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 0 as #15.1, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 1 as #15.2, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 2 as #15.3, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 3 as #15.4, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 4 as #15.5, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 5 as #15.6, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 6 as #15.7, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 7 as #15.8, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc 8 as #15.9, grid
size 320,320,320, pixel 0.928, shown at level 0.642, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 0 as #19.1, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 1 as #19.2, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 2 as #19.3, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 3 as #19.4, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 4 as #19.5, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 5 as #19.6, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 6 as #19.7, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 7 as #19.8, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 8 as #19.9, grid size 356,356,356,
pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 9 as #19.10, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened EatA-G12_composite_map.ccp4 gaussian 10 as #19.11, grid size
356,356,356, pixel 0.86, shown at level 5.72, step 1, values float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 0 as #21.1,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 1 as #21.2,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 2 as #21.3,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 3 as #21.4,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 4 as #21.5,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 5 as #21.6,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 6 as #21.7,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 7 as #21.8,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 8 as #21.9,
grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1, values
float32  
Opened Pic-40_cryosparc_P7_J1193_002_volume_map_sharp.mrc gaussian 9 as
#21.10, grid size 320,320,320, pixel 0.938, shown at level 0.0593, step 1,
values float32  

restore_snapshot for "ZoneColor" returned None  

Log from Sun Nov 2 23:30:54 2025UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-maps-
> aligned_Fig4.cxs

[deleted to fit within ticket limits]


> ui tool show Matchmaker

QWindowsWindow::setGeometry: Unable to set geometry 640x574+880+428 (frame:
658x621+871+390) on QWidgetWindow/"QDockWidgetClassWindow" on
"\\\\.\DISPLAY1". Resulting geometry: 638x566+881+435 (frame: 656x613+872+397)
margins: 9, 38, 9, 9 minimum size: 486x321 maximum size: 524287x524287
MINMAXINFO(maxSize=POINT(x=0, y=0), maxpos=POINT(x=0, y=0),
maxtrack=POINT(x=655377, y=655406), mintrack=POINT(x=626, y=448)))  

> matchmaker #!22 to #11

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker SepA-Fab40_RSR_real_space_refined_208.pdb, chain A (#11) with EatA-
FabG12_RSR_real_space_refined_013.pdb, chain A (#22), sequence alignment score
= 2568.8  
RMSD between 531 pruned atom pairs is 1.321 angstroms; (across all 745 pairs:
2.371)  
  

> select clear

> fitmap #22 inMap #4

Fit molecule EatA-FabG12_RSR_real_space_refined_013.pdb (#22) to map
composite_map_J1626+J1599+J1295.ccp4 (#4) using 8934 atoms  
average map value = 16.96, steps = 64  
shifted from previous position = 0.164  
rotated from previous position = 0.494 degrees  
atoms outside contour = 2766, contour level = 11  
  
Position of EatA-FabG12_RSR_real_space_refined_013.pdb (#22) relative to
composite_map_J1626+J1599+J1295.ccp4 (#4) coordinates:  
Matrix rotation and translation  
0.99999997 0.00016736 -0.00019720 0.00453544  
-0.00016737 0.99999998 -0.00005185 0.02561694  
0.00019719 0.00005188 0.99999998 -0.03116835  
Axis 0.19660280 -0.74754244 -0.63445065  
Axis point 153.18392184 0.00000000 21.46109238  
Rotation angle (degrees) 0.01511415  
Shift along axis 0.00151670  
  

> select clear

> hide #!22 models

> show #!22 models

> ui tool show "Color Zone"

> color zone #4 near #22 distance 4.84

> volume splitbyzone #4

Opened composite_map_J1626+J1599+J1295.ccp4 0 as #27.1, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 1 as #27.2, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 2 as #27.3, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 3 as #27.4, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 4 as #27.5, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 5 as #27.6, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 6 as #27.7, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 7 as #27.8, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 8 as #27.9, grid size 356,356,356,
pixel 0.86, shown at level 11, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 9 as #27.10, grid size
356,356,356, pixel 0.86, shown at level 11, step 1, values float32  

> color #27.10 #6ea098b4 models

> color #27.9 #2c514cb4 models

> color #27.8 #ff69b4b4 models

> color #27.7 #ff0000b4 models

> color #27.6 #7dcdd2b4 models

> color #27.5 #ffd700b4 models

> hide #!27.4 models

> show #!27.4 models

> color #27.4 #ffffffb4 models

> color #27.3 #ff00ffb4 models

> color #27.2 #6495edb4 models

> color #27.1 #b2b2b208 models

> color #27.1 #b2b2b2b4 models

> hide #!27.1 models

> show #!27.1 models

> alias licorice car style protein modeh default arrows f xsect oval width 1
> thick 1

> licorice

> select clear

> hide #!27 models

> show #!27 models

> hide #!27.9 models

> hide #!27.10 models

> hide #!27 models

> show #!27 models

> hide #!27.1 models

> show #!27.1 models

> hide #!27.1 models

> show #!27.1 models

> show #!27.9 models

> show #!27.10 models

> graphics silhouettes width 4

> save C:\Users\David/Desktop/new-snaps/test4.png supersample 4 width 3000
> height 2600

> show #!4 models

> hide #!4 models

> volume gaussin #4 sd 1

Expected a density maps specifier or a keyword  

> volume gaussian #4 sDev 1

Opened composite_map_J1626+J1599+J1295.ccp4 gaussian as #28, grid size
356,356,356, pixel 0.86, shown at step 1, values float32  

> hide #!27 models

> volume #28 level 5.995

> show #!27 models

> color #28 #b2b2b2b4 models

> volume #28 level 6.455

> hide #!27 models

> color zone #28 near #22 distance 5.16

> color zone #28 near #22 distance 6.01

> volume splitbyzone #28

Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 0 as #29.1, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 1 as #29.2, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 2 as #29.3, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 3 as #29.4, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 4 as #29.5, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 5 as #29.6, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 6 as #29.7, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 7 as #29.8, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 8 as #29.9, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 9 as #29.10, grid size
356,356,356, pixel 0.86, shown at level 6.45, step 1, values float32  

> color #29.10 #6ea098b4 models

> color #29.9 #2c514cb4 models

> color #29.8 #ff69b4b4 models

> color #29.7 #ff0000b4 models

> color #29.6 #7dcdd2b4 models

> color #29.5 #ffd700b4 models

> color #29.4 #ffffffb4 models

> color #29.3 #ff00ffb4 models

> color #29.2 #6495edb4 models

> color #29.1 #b2b2b2b4 models

> hide #!29.9 models

> hide #!29.10 models

> show #!29.9 models

> show #!29.10 models

> save C:\Users\David/Desktop/new-snaps/test4.png supersample 4 width 3000
> height 2600

> hide #!29 models

> hide #!22 models

> show #!17 models

> show #!8 models

> save C:\Users\David/Desktop/new-snaps/test5.png supersample 4 width 3000
> height 2600

> hide #!8 models

> hide #!17 models

> show #!4 models

> show #!1 models

> show #!2 models

> hide #!1 models

> hide #!2 models

> hide #!4 models

> show #!23 models

> save C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-maps-
> aligned_Fig4-edit2.cxs

——— End of log from Mon Nov 17 16:44:16 2025 ———

opened ChimeraX session  

> show #!1 models

> hide #!1 models

> show #!7 models

> hide #!7 models

> show #16 models

> show #!29 models

> hide #!29 models

> show #!29 models

> hide #!29 models

> show #!29 models

> hide #!29 models

> show #!28 models

> hide #!28 models

> show #!22 models

> show #!17 models

> hide #!17 models

> show #!8 models

> show #!9 models

> select #8/A

6266 atoms, 6372 bonds, 8 pseudobonds, 829 residues, 2 models selected  

> select #8/A #9/A #22/A

17860 atoms, 18152 bonds, 37 pseudobonds, 2360 residues, 6 models selected  

> hide sel cartoons

> hide #!23 models

> show #!23 models

> hide #!22 models

> show #!22 models

> show #!28 models

> hide #!28 models

> hide #16 models

> show #16 models

> select #8/B,C #9/B,C #16/A,B #22/B,C

12634 atoms, 12934 bonds, 16 pseudobonds, 1656 residues, 7 models selected  

> show sel surfaces

> transparency (#!8-9,16,22 & sel) 90

> select clear

> show #!28 models

> hide #!28 models

> show #!28 models

> show #!15 models

> hide #!15 models

> hide #!28 models

> show #!17 models

> hide #!16 models

> show #!16 models

> hide #!8 models

> hide #!9 models

> show #!18 models

> show #!28 models

> show #!15 models

> hide #!16 models

> hide #!15 models

> show #10 models

> hide #10 models

> show #!1 models

> show #!16 models

> hide #!16 models

> show #!16 models

> volume mask #1 surfaces #16

Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc masked as #30, grid
size 78,80,66, pixel 0.928, shown at step 1, values float32  

> hide #!28 models

> hide #!18 models

> hide #!17 models

> hide #!16 models

> volume #30 level 0.5583

> hide #!22 models

> show #!22 models

> show #!29 models

> hide #!30 models

> show #!30 models

> hide #!22 models

> show #!22 models

> hide #!30 models

> show #!30 models

> hide #!29 models

> show #!29 models

> hide #!22 models

> show #!22 models

> volume mask #29 surfaces #22

Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 0 masked as #31, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 1 masked as #32, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 2 masked as #33, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 3 masked as #34, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 4 masked as #35, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 5 masked as #36, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 6 masked as #37, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 7 masked as #38, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 8 masked as #39, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  
Opened composite_map_J1626+J1599+J1295.ccp4 gaussian 9 masked as #40, grid
size 84,78,83, pixel 0.86, shown at step 1, values float32  

> hide #!22 models

> hide #!31 models

> hide #!32 models

> hide #!33 models

> hide #!34 models

> hide #!35 models

> hide #!36 models

> hide #!37 models

> hide #!38 models

> hide #!39 models

> hide #!40 models

> show #!40 models

> show #!39 models

> close #31-40

> show #!28 models

> volume mask #28 surfaces #22

Opened composite_map_J1626+J1599+J1295.ccp4 gaussian masked as #31, grid size
84,78,83, pixel 0.86, shown at step 1, values float32  

> volume #31 level 5.226

> color #31 #b2b2b2ff models

> select clear

> close #31

> show #!27 models

> hide #!27 models

> show #!4 models

> hide #!4 models

> volume gaussian #4 sDev 2

Opened composite_map_J1626+J1599+J1295.ccp4 gaussian as #31, grid size
356,356,356, pixel 0.86, shown at step 1, values float32  

> volume #31 level 6.321

> volume #31 level 2.736

> volume mask #31 surfaces #22

Opened composite_map_J1626+J1599+J1295.ccp4 gaussian masked as #32, grid size
84,78,83, pixel 0.86, shown at step 1, values float32  

> volume #32 level -0.265

> close #32

> close #31

> open C:/Users/David/Documents/lab/Berndsen/EatA/maps/EatA-FabG12/ACTUAL-
> FINAL-MAP/composite_map_J1626+J1599+J1295.ccp4

Opened composite_map_J1626+J1599+J1295.ccp4 as #31, grid size 356,356,356,
pixel 0.86, shown at level 1.85, step 2, values float32  

> volume #31 step 1

> volume #31 level 17.64

> select clear

> select #31

2 models selected  

> ui mousemode right "rotate selected models"

> view matrix models
> #31,0.99663,-0.081706,0.0071854,10.201,0.081724,0.99665,-0.0023133,-11.764,-0.0069724,0.0028927,0.99997,0.69415

> ui tool show "Fit in Map"

> fitmap #31 inMap #5

Fit map composite_map_J1626+J1599+J1295.ccp4 in map
SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc using 38473 points  
correlation = 0.3863, correlation about mean = 0.09089, overlap = 8.407e+04  
steps = 236, shift = 6.51, angle = 5.32 degrees  
  
Position of composite_map_J1626+J1599+J1295.ccp4 (#31) relative to
SepA-40_cryosparc_P7_J1169_009_volume_map_sharp.mrc (#5) coordinates:  
Matrix rotation and translation  
0.99748278 -0.02886231 0.06476929 -9.64591594  
0.02591303 0.99860886 0.04592236 -15.11779553  
-0.06600461 -0.04412839 0.99684305 13.79263787  
Axis -0.53613713 0.77859142 0.32611713  
Axis point 210.99850006 0.00000000 174.51925630  
Rotation angle (degrees) 4.81743578  
Shift along axis -2.10103676  
  

> select clear

> volume gaussian #31 sDev 2

Opened composite_map_J1626+J1599+J1295.ccp4 gaussian as #32, grid size
356,356,356, pixel 0.86, shown at step 1, values float32  

> volume #32 level 5.17

> show #!22 models

> color #32 #ffb2b2b4 models

> select #22

8934 atoms, 9092 bonds, 28 pseudobonds, 1172 residues, 2 models selected  

> hide sel surfaces

> volume #32 level 3.948

> volume #32 level 1.505

> volume #32 level 0.1262

> volume #32 level 0.5648

> select #22/B,C

3153 atoms, 3227 bonds, 6 pseudobonds, 410 residues, 2 models selected  

> show sel surfaces

> volume mask #32 surfaces #22

Opened composite_map_J1626+J1599+J1295.ccp4 gaussian masked as #33, grid size
84,78,83, pixel 0.86, shown at step 1, values float32  

> select clear

> hide #!22 models

> color #33 #ffb2b2ff models

> volume #33 level 0.1293

> close #33

> volume #32 level 2.288

> close #32

> show #!22 models

> hide #!22 models

> volume mask #31 surfaces #22

Opened composite_map_J1626+J1599+J1295.ccp4 masked as #32, grid size 84,78,83,
pixel 0.86, shown at step 1, values float32  

> hide #!32 models

> show #!32 models

> volume #32 level 12.48

> volume gaussian #32 sDev 1

Opened composite_map_J1626+J1599+J1295.ccp4 masked gaussian as #33, grid size
84,78,83, pixel 0.86, shown at step 1, values float32  

> volume #33 level 4.866

> volume #33 level 6.086

> volume gaussian #32 sDev 2

Opened composite_map_J1626+J1599+J1295.ccp4 masked gaussian as #34, grid size
84,78,83, pixel 0.86, shown at step 1, values float32  

> hide #!33 models

> volume #34 level 2.789

> show #!17 models

> show #!18 models

> show #!7 models

> show #!8 models

> hide #!17 models

> hide #!18 models

> hide #!8 models

> hide #!7 models

> show #!8 models

> show #!9 models

> show #!17 models

> show #!18 models

> hide #!9 models

> hide #!8 models

> show #!2 models

> show #!3 models

> hide #!3 models

> hide #!2 models

> hide #!17 models

> hide #!18 models

> show #!2 models

> hide #!2 models

> show #!3 models

> hide #!3 models

> show #!3 models

> show #!2 models

> show #!8 models

> show #!9 models

> volume mask #2 surfaces #8

Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc masked as #35, grid
size 65,50,86, pixel 0.928, shown at step 1, values float32  

> volume mask #3 surfaces #9

Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc masked as #36, grid
size 65,49,89, pixel 0.928, shown at step 1, values float32  

> hide #!8 models

> hide #!9 models

> select #23

7500 atoms, 7628 bonds, 1006 residues, 1 model selected  

> transparency (#!23 & sel) 90

> select clear

> volume #30 level 0.5205

> volume gaussian #30 sDev 1

Opened EatA-25_cryosparc_P18_J417_007_volume_map_sharp.mrc masked gaussian as
#37, grid size 78,80,66, pixel 0.928, shown at step 1, values float32  

> volume #37 level 0.2599

> volume #37 level 0.3494

> volume #37 level 0.5661

> volume gaussian #35 sDev 1

Opened EatA-15_cryosparc_P7_J1177_008_volume_map_sharp.mrc masked gaussian as
#38, grid size 65,50,86, pixel 0.928, shown at step 1, values float32  

> volume gaussian #36sd 1

Missing or invalid "volumes" argument: only initial part "#36" of atom
specifier valid  

> volume gaussian #36 sDev 1

Opened EatA-40_cryosparc_P7_J1175_008_volume_map_sharp.mrc masked gaussian as
#39, grid size 65,49,89, pixel 0.928, shown at step 1, values float32  

> volume #38 level 0.5776

> volume #39 level 0.7292

> volume #37 level 0.5317

> save C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-maps-
> aligned_Fig4-edit2.cxs

> volume #38 color #36558f

> volume #39 color #ecb0e1

> select clear

> volume #37 color rebeccapurple

> volume #33 color #2c514c

> volume #33 level 8.306

> ui tool show "Color Zone"

> color zone #33 near #22 distance 5.16

> show #!7 models

> hide #!7 models

> hide #!23 models

> show #!16 models

> show #!23 models

> select #16/B

1616 atoms, 1650 bonds, 211 residues, 1 model selected  

> color (#!16 & sel) #7b5d99ff

> select clear

> hide #!16 models

> color zone #37 near #16 distance 5.57

> color #33 #6ea098ff models

> select clear

> color #37 #7b5d99ff models

> select clear

> volume #33 level 10.09

> save C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-maps-
> aligned_Fig4-edit2.cxs

——— End of log from Wed Nov 26 13:25:16 2025 ———

opened ChimeraX session  

> hide #!37 models

> hide #!38 models

> hide #!39 models

> hide #!33 models

> show #!7 models

> hide #!7 models

> show #!8 models

> show #!9 models

> show #10 models

> hide #10 models

> show #!11 models

> hide #!11 models

> show #!16 models

> transparency #8-9,16,23#!29 0

> select #8 #9 #16

21560 atoms, 21994 bonds, 25 pseudobonds, 2844 residues, 5 models selected  

> hide sel surfaces

> hide #!23 models

> show #!23 models

> select clear

> open C:/Users/David/Documents/lab/Berndsen/EatA/maps/EatA-FabG12/ACTUAL-
> FINAL-MAP/EatA-FabG12_RSR_real_space_refined_227-coot-0.pdb

Chain information for EatA-FabG12_RSR_real_space_refined_227-coot-0.pdb #40  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  

> ui tool show Matchmaker

> matchmaker #!40 to #10

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker EatA-FabG12_RSR_real_space_refined_010.pdb, chain A (#10) with
EatA-FabG12_RSR_real_space_refined_227-coot-0.pdb, chain A (#40), sequence
alignment score = 3231.2  
RMSD between 747 pruned atom pairs is 0.372 angstroms; (across all 762 pairs:
0.770)  
  

> licorice

> select #40/A

5781 atoms, 5865 bonds, 22 pseudobonds, 762 residues, 2 models selected  

> hide sel cartoons

> hide sel atoms

> select clear

> select #40/B

1690 atoms, 1735 bonds, 1 pseudobond, 221 residues, 2 models selected  

> color (#!40 & sel) #2c514cff

> select clear

> select #40/C

1572 atoms, 1613 bonds, 209 residues, 1 model selected  

> color sel #6ea098ff

> select clear

> save C:\Users\David/Desktop/high_res_image-COMPLEX.png supersample 4 width
> 3000 height 2200

[Repeated 1 time(s)]

> hide #!40 models

> show #!40 models

> hide #!40 models

> show #!40 models

> save C:\Users\David/Desktop/high_res_image-COMPLEX.png supersample 4 width
> 3000 height 2200

[Repeated 1 time(s)]

> hide #!40 models

> hide #!16 models

> hide #!9 models

> hide #!8 models

> save C:\Users\David/Desktop/high_res_image-5J44.png supersample 4 width 3000
> height 2200

> show #!40 models

> show #!28 models

> hide #!28 models

> show #!29.1 models

> show #!29.2 models

> show #!29.3 models

> show #!29.4 models

> show #!29.5 models

> show #!29.6 models

> show #!29.7 models

> show #!29.8 models

> show #!29.9 models

> show #!29.10 models

> hide #!23 models

> select #40/A

5781 atoms, 5865 bonds, 22 pseudobonds, 762 residues, 2 models selected  

> show sel cartoons

> select #40/A

5781 atoms, 5865 bonds, 22 pseudobonds, 762 residues, 2 models selected  

> color (#!40 & sel) #ffffffff

> select #40/A:1-256

1600 atoms, 1633 bonds, 6 pseudobonds, 210 residues, 2 models selected  

> color (#!40 & sel) cornflower blue

> select clear

> select #40/A:78,106,211

24 atoms, 22 bonds, 3 residues, 1 model selected  

> color sel magenta

> select clear

> select #40/A:481-560

151 atoms, 149 bonds, 1 pseudobond, 19 residues, 2 models selected  

> ui tool show "Color Actions"

> color sel gold

[Repeated 1 time(s)]

> select clear

> select #40/A:611-629

117 atoms, 120 bonds, 1 pseudobond, 15 residues, 2 models selected  

> ui tool show "Color Actions"

> color (#!40 & sel) #7dcdd2ff

> select #40/A:669-699

185 atoms, 182 bonds, 3 pseudobonds, 27 residues, 2 models selected  

> color (#!40 & sel) #ff0000ff

> select clear

> hide #!29.10 models

> hide #!29.9 models

> ui tool show "Side View"

> save C:\Users\David/Desktop/high_res_image-COMPLEX-ZOOM.png supersample 4
> width 3000 height 2200

[Repeated 1 time(s)]

> save C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-maps-
> aligned_Fig4-edit2.cxs

——— End of log from Wed Dec 10 17:24:00 2025 ———

opened ChimeraX session  

> view

> hide #!29 models

> show #!29 models

> hide #!29 models

> hide #!40 models

> show #!7 models

> show #!8 models

> show #!9 models

> show #10 models

> show #!11 models

> show #!12 models

> show #!39 models

> hide #!39 models

> hide #10 models

> show #10 models

> show #!40 models

> show #!1 models

> hide #!1 models

> close #10

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> hide #!4 models

> hide #!3 models

> hide #!2 models

> hide #!1 models

> show #!13 models

> hide #!13 models

> show #!15 models

> hide #!15 models

> show #!16 models

> hide #!16 models

> show #!16 models

> hide #!16 models

> show #!17 models

> hide #!17 models

> show #!19 models

> hide #!19 models

> show #!19 models

> hide #!19 models

> show #!20 models

> hide #!20 models

> show #!23 models

> hide #!23 models

> show #!24 models

> hide #!24 models

> show #!24 models

> hide #!24 models

> show #!25 models

> hide #!25 models

> show #!26 models

> hide #!26 models

> show #!27 models

> hide #!27 models

> rename #1 id #50

> rename #2 #8 #17 #35 id #1

> hide #!1.2 models

> show #!1.2 models

> hide #!7 models

> hide #!9 models

> hide #!11 models

> hide #!12 models

> hide #!1.2 models

> show #!1.2 models

> hide #!1 models

> show #!1 models

> show #!1.1 models

> hide #!1.1 models

> rename #3 #9 #18 #36 #39 id #2

> show #!2.4 models

> hide #!2.4 models

> show #!2.5 models

> hide #!2.5 models

> show #!2.5 models

> hide #!2.5 models

> show #!2.4 models

> hide #!2.4 models

> show #!2.3 models

> hide #!2.3 models

> show #!2.3 models

> hide #!2.3 models

> show #!2.2 models

> hide #!2.2 models

> show #!2.1 models

> hide #!2.1 models

> rename #7 #15 #16 #30 #37 #50 id #3

> show #!3.1 models

> show #!3.2 models

> hide #!3.2 models

> show #!3.3 models

> hide #!3.3 models

> show #!3.4 models

> hide #!3.4 models

> show #!3.3 models

> hide #!3.3 models

> show #!3.5 models

> hide #!3.5 models

> rename #4 id #50

> show #!50 models

> close #22

> rename #27-34 id #51

> rename #51.1 id #52

> rename #51.2 id #53

> rename #51.3 id #54

> rename #51.4 id #55

> rename #51.5 id #56

> rename #51.6 id #57

> rename #51.7 id #58

> close #51

> rename #50 #40 #13 #19 #24 #25 #26 #52-58 id #4

> hide #!4.1 models

> hide #!4.2 models

> show #!4.2 models

> show #!4.3 models

> hide #!4.3 models

> show #!4.4 models

> hide #!4.4 models

> show #!4.5 models

> hide #!4.5 models

> show #!4.6 models

> hide #!4.6 models

> show #!4.7 models

> hide #!4.7 models

> show #!4.8 models

> hide #!4.8 models

> show #!4.9 models

> hide #!4.9 models

> show #!4.10 models

> hide #!4.10 models

> show #!4.11 models

> hide #!4.11 models

> show #!4.12 models

> hide #!4.12 models

> show #!4.13 models

> hide #!4.13 models

> show #!4.14 models

> hide #!4.14 models

> show #!2.2 models

> rename #5 id #50

> rename #50 #11 #20 id #5

> show #!5.2 models

> show #!38 models

> hide #!38 models

> close #38

> rename #6 id #50

> rename #50 #12 #14 #21 id #6

> show #!6.1 models

> hide #!6.1 models

> show #!6.2 models

> show #!23 models

> hide #!23 models

> rename #1 EatA-15

> rename #2 EatA-40

> rename #3 EatA-25

> rename #4 EatA-G12

> rename #5 SepA-40

> rename #6 Pic-40

> rename #23 id #7

> save C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-maps-
> aligned_1.cxs includeMaps true

——— End of log from Wed Jan 7 13:06:56 2026 ———

opened ChimeraX session  

> close #1.1

> close #1.3-4

> close #2.1

> close #2.3-5

> close #3.2-6

> close #4.1

> close #4.3-14

> close #5.1

> close #5.3

> close #6.1

> close #6.3-4

> show #!7 models

> hide #!7 models

> select #2/A

5813 atoms, 5915 bonds, 7 pseudobonds, 769 residues, 2 models selected  

> hide #!2 models

> show #!2 models

> hide #!3 models

> hide #!4 models

> hide #!1 models

> show sel atoms

> hide sel atoms

> show sel cartoons

> select clear

> hide #!2.2 models

> show #!2.2 models

> hide #!2 models

> hide #!5.2 models

> show #!5.2 models

> show #!2 models

> select #5/A

6163 atoms, 6259 bonds, 6 pseudobonds, 830 residues, 2 models selected  

> show sel cartoons

> select clear

> hide #!5.2 models

> hide #!2 models

> select #6/A

5739 atoms, 5840 bonds, 14 pseudobonds, 828 residues, 2 models selected  

> show sel cartoons

> select clear

> show #!5.2 models

> show #!2 models

> select clear

> select #2/A

5813 atoms, 5915 bonds, 7 pseudobonds, 769 residues, 2 models selected  

> ui tool show Matchmaker

> select #2/A #5/A #6/A

17715 atoms, 18014 bonds, 27 pseudobonds, 2427 residues, 6 models selected  

> matchmaker #!5.2#!6.2 & sel to #2.2 & sel

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker EatA-Fab40_RSR_real_space_refined_206.pdb, chain A (#2.2) with
SepA-Fab40_RSR_real_space_refined_208.pdb, chain A (#5.2), sequence alignment
score = 3055  
RMSD between 762 pruned atom pairs is 0.490 angstroms; (across all 768 pairs:
1.177)  
  
Matchmaker EatA-Fab40_RSR_real_space_refined_206.pdb, chain A (#2.2) with Pic-
Fab40_RSR_real_space_refined_199.pdb, chain A (#6.2), sequence alignment score
= 1978.2  
RMSD between 643 pruned atom pairs is 0.933 angstroms; (across all 689 pairs:
1.962)  
  

> select clear

> save C:/Users/David/Documents/lab/Berndsen/EatA/AAA_final-sessions/all-
> models.cxs includeMaps true

——— End of log from Wed Jan 7 13:23:09 2026 ———

> view name session-start

opened ChimeraX session  
Desktop color scheme is dark  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 98, in _expose_event  
self.status(self._last_message, self._last_color)  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 164, in status  
r.draw_background()  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1238, in draw_background  
GL.glClear(flags)  
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
OpenGL.error.GLError: GLError(  
err = 1286,  
description = b'invalid framebuffer operation',  
baseOperation = glClear,  
cArguments = (16640,)  
)  
  
OpenGL.error.GLError: GLError(  
err = 1286,  
description = b'invalid framebuffer operation',  
baseOperation = glClear,  
cArguments = (16640,)  
)  
  
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 98, in _expose_event  
self.status(self._last_message, self._last_color)  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 164, in status  
r.draw_background()  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1238, in draw_background  
GL.glClear(flags)  
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
OpenGL.error.GLError: GLError(  
err = 1286,  
description = b'invalid framebuffer operation',  
baseOperation = glClear,  
cArguments = (16640,)  
)  
  
OpenGL.error.GLError: GLError(  
err = 1286,  
description = b'invalid framebuffer operation',  
baseOperation = glClear,  
cArguments = (16640,)  
)  
  
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
  
See log for complete Python traceback.  
  
Traceback (most recent call last):  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 98, in _expose_event  
self.status(self._last_message, self._last_color)  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/ui/statusbar.py", line 164, in status  
r.draw_background()  
File
"/Applications/ChimeraX-1.10.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-
packages/chimerax/graphics/opengl.py", line 1238, in draw_background  
GL.glClear(flags)  
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
OpenGL.error.GLError: GLError(  
err = 1286,  
description = b'invalid framebuffer operation',  
baseOperation = glClear,  
cArguments = (16640,)  
)  
  
OpenGL.error.GLError: GLError(  
err = 1286,  
description = b'invalid framebuffer operation',  
baseOperation = glClear,  
cArguments = (16640,)  
)  
  
File "src/errorchecker.pyx", line 59, in
OpenGL_accelerate.errorchecker._ErrorChecker.glCheckError  
  
See log for complete Python traceback.  
  




OpenGL version: 4.1 Metal - 90.5
OpenGL renderer: Apple M2 Pro
OpenGL vendor: Apple

Python: 3.11.4
Locale: en_US.UTF-8
Qt version: PyQt6 6.8.1, Qt 6.8.2
Qt runtime version: 6.8.2
Qt platform: cocoa
Hardware:

    Hardware Overview:

      Model Name: MacBook Pro
      Model Identifier: Mac14,9
      Model Number: Z17H000CGLL/A
      Chip: Apple M2 Pro
      Total Number of Cores: 12 (8 performance and 4 efficiency)
      Memory: 32 GB
      System Firmware Version: 13822.61.10
      OS Loader Version: 13822.61.10

Software:

    System Software Overview:

      System Version: macOS 26.2 (25C56)
      Kernel Version: Darwin 25.2.0
      Time since boot: 7 days, 9 hours, 55 minutes

Graphics/Displays:

    Apple M2 Pro:

      Chipset Model: Apple M2 Pro
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 19
      Vendor: Apple (0x106b)
      Metal Support: Metal 4
      Displays:
        Studio Display:
          Display Type: Retina LCD
          Resolution: 5120 x 2880 Retina
          Display Serial Number: V5K6P7RJ2X
          Display Firmware Version: Version 17.0 (Build 21A329)
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes
        Studio Display:
          Display Type: Retina LCD
          Resolution: 5120 x 2880 Retina
          Display Serial Number: NNQ2Q230MJ
          Display Firmware Version: Version 17.0 (Build 21A329)
          Mirror: Off
          Online: Yes
          Automatically Adjust Brightness: Yes


Installed Packages:
    alabaster: 1.0.0
    appdirs: 1.4.4
    appnope: 0.1.4
    asttokens: 3.0.0
    auditwheel: 6.4.0
    babel: 2.17.0
    beautifulsoup4: 4.13.3
    blockdiag: 3.0.0
    blosc2: 3.5.0
    build: 1.2.2.post1
    certifi: 2023.11.17
    cftime: 1.6.4.post1
    charset-normalizer: 3.4.2
    ChimeraX-AddCharge: 1.5.19
    ChimeraX-AddH: 2.2.7
    ChimeraX-AlignmentAlgorithms: 2.0.2
    ChimeraX-AlignmentHdrs: 3.6.1
    ChimeraX-AlignmentMatrices: 2.1
    ChimeraX-Alignments: 2.20.2
    ChimeraX-AlphaFold: 1.0.1
    ChimeraX-AltlocExplorer: 1.1.2
    ChimeraX-AmberInfo: 1.0
    ChimeraX-Aniso: 1.1.4
    ChimeraX-Arrays: 1.1
    ChimeraX-Atomic: 1.60.7
    ChimeraX-AtomicLibrary: 14.1.18
    ChimeraX-AtomSearch: 2.0.1
    ChimeraX-AxesPlanes: 2.4
    ChimeraX-BasicActions: 1.1.3
    ChimeraX-BILD: 1.0
    ChimeraX-BlastProtein: 3.0.0
    ChimeraX-Boltz: 1.0
    ChimeraX-BondRot: 2.0.4
    ChimeraX-BugReporter: 1.0.2
    ChimeraX-BuildStructure: 2.13.1
    ChimeraX-Bumps: 1.0
    ChimeraX-BundleBuilder: 1.5.1
    ChimeraX-ButtonPanel: 1.0.1
    ChimeraX-CageBuilder: 1.0.1
    ChimeraX-CellPack: 1.0
    ChimeraX-Centroids: 1.4
    ChimeraX-ChangeChains: 1.1
    ChimeraX-CheckWaters: 1.5
    ChimeraX-ChemGroup: 2.0.2
    ChimeraX-Clashes: 2.3
    ChimeraX-ColorActions: 1.0.5
    ChimeraX-ColorGlobe: 1.0
    ChimeraX-ColorKey: 1.5.8
    ChimeraX-CommandLine: 1.3
    ChimeraX-ConnectStructure: 2.0.1
    ChimeraX-Contacts: 1.0.1
    ChimeraX-Core: 1.10
    ChimeraX-CoreFormats: 1.2
    ChimeraX-coulombic: 1.4.5
    ChimeraX-Crosslinks: 1.0
    ChimeraX-Crystal: 1.0
    ChimeraX-CrystalContacts: 1.0.1
    ChimeraX-DataFormats: 1.2.4
    ChimeraX-Dicom: 1.2.7
    ChimeraX-DistMonitor: 1.4.2
    ChimeraX-DockPrep: 1.1.4
    ChimeraX-Dssp: 2.0
    ChimeraX-EMDB-SFF: 1.0
    ChimeraX-ESMFold: 1.0
    ChimeraX-FileHistory: 1.0.1
    ChimeraX-FunctionKey: 1.0.1
    ChimeraX-Geometry: 1.3
    ChimeraX-gltf: 1.0
    ChimeraX-Graphics: 1.4.1
    ChimeraX-Hbonds: 2.5.1
    ChimeraX-Help: 1.3
    ChimeraX-HKCage: 1.3
    ChimeraX-IHM: 1.1
    ChimeraX-ImageFormats: 1.2
    ChimeraX-IMOD: 1.0
    ChimeraX-IO: 1.0.3
    ChimeraX-ItemsInspection: 1.0.1
    ChimeraX-IUPAC: 1.0
    ChimeraX-KVFinder: 1.6.2
    ChimeraX-Label: 1.1.14
    ChimeraX-ListInfo: 1.2.2
    ChimeraX-Log: 1.2
    ChimeraX-LookingGlass: 1.1
    ChimeraX-Maestro: 1.9.1
    ChimeraX-Map: 1.3
    ChimeraX-MapData: 2.0
    ChimeraX-MapEraser: 1.0.1
    ChimeraX-MapFilter: 2.0.1
    ChimeraX-MapFit: 2.0
    ChimeraX-MapSeries: 2.1.1
    ChimeraX-Markers: 1.0.1
    ChimeraX-Mask: 1.0.2
    ChimeraX-MatchMaker: 2.2.2
    ChimeraX-MCopy: 1.0
    ChimeraX-MDcrds: 2.10.1
    ChimeraX-MedicalToolbar: 1.1
    ChimeraX-Meeting: 1.0.1
    ChimeraX-MLP: 1.1.1
    ChimeraX-mmCIF: 2.16
    ChimeraX-MMTF: 2.2
    ChimeraX-ModelArchive: 1.0
    ChimeraX-Modeller: 1.5.19
    ChimeraX-ModelPanel: 1.5.1
    ChimeraX-ModelSeries: 1.0.1
    ChimeraX-Mol2: 2.0.3
    ChimeraX-Mole: 1.0
    ChimeraX-Morph: 1.0.2
    ChimeraX-MouseModes: 1.2
    ChimeraX-Movie: 1.0
    ChimeraX-MutationScores: 1.0
    ChimeraX-Neuron: 1.0
    ChimeraX-Nifti: 1.2
    ChimeraX-NMRSTAR: 1.0.2
    ChimeraX-NRRD: 1.2
    ChimeraX-Nucleotides: 2.0.3
    ChimeraX-OpenCommand: 1.14.1
    ChimeraX-OrthoPick: 1.0.1
    ChimeraX-PDB: 2.7.10
    ChimeraX-PDBBio: 1.0.1
    ChimeraX-PDBLibrary: 1.0.4
    ChimeraX-PDBMatrices: 1.0
    ChimeraX-PickBlobs: 1.0.1
    ChimeraX-Positions: 1.0
    ChimeraX-PresetMgr: 1.1.3
    ChimeraX-ProfileGrids: 1.1.2
    ChimeraX-PubChem: 2.2
    ChimeraX-ReadPbonds: 1.0.1
    ChimeraX-Registration: 1.1.2
    ChimeraX-RemoteControl: 1.0
    ChimeraX-RenderByAttr: 1.6.3
    ChimeraX-RenumberResidues: 1.1
    ChimeraX-ResidueFit: 1.0.1
    ChimeraX-RestServer: 1.3.1
    ChimeraX-RNALayout: 1.0
    ChimeraX-RotamerLibMgr: 4.0
    ChimeraX-RotamerLibsDunbrack: 2.0
    ChimeraX-RotamerLibsDynameomics: 2.0
    ChimeraX-RotamerLibsRichardson: 2.0
    ChimeraX-SaveCommand: 1.5.1
    ChimeraX-SchemeMgr: 1.0
    ChimeraX-SDF: 2.0.3
    ChimeraX-Segger: 1.0
    ChimeraX-Segment: 1.0.1
    ChimeraX-Segmentations: 3.5.7
    ChimeraX-SelInspector: 1.0
    ChimeraX-SeqView: 2.17.1
    ChimeraX-Shape: 1.1
    ChimeraX-Shell: 1.0.1
    ChimeraX-Shortcuts: 1.2.1
    ChimeraX-ShowSequences: 1.0.3
    ChimeraX-SideView: 1.0.1
    ChimeraX-SimilarStructures: 1.0.1
    ChimeraX-Smiles: 2.1.2
    ChimeraX-SmoothLines: 1.0
    ChimeraX-SpaceNavigator: 1.0
    ChimeraX-StdCommands: 1.19.1
    ChimeraX-STL: 1.0.1
    ChimeraX-Storm: 1.0
    ChimeraX-StructMeasure: 1.2.1
    ChimeraX-Struts: 1.0.1
    ChimeraX-Surface: 1.0.1
    ChimeraX-SwapAA: 2.0.1
    ChimeraX-SwapRes: 2.5.2
    ChimeraX-TapeMeasure: 1.0
    ChimeraX-TaskManager: 1.0
    ChimeraX-Test: 1.0
    ChimeraX-Toolbar: 1.2.3
    ChimeraX-ToolshedUtils: 1.2.4
    ChimeraX-Topography: 1.0
    ChimeraX-ToQuest: 1.0
    ChimeraX-Tug: 1.0.1
    ChimeraX-UI: 1.45.2
    ChimeraX-Umap: 1.0
    ChimeraX-uniprot: 2.3.1
    ChimeraX-UnitCell: 1.0.1
    ChimeraX-ViewDockX: 1.4.4
    ChimeraX-VIPERdb: 1.0
    ChimeraX-Vive: 1.1
    ChimeraX-VolumeMenu: 1.0.1
    ChimeraX-vrml: 1.0
    ChimeraX-VTK: 1.0
    ChimeraX-WavefrontOBJ: 1.0
    ChimeraX-WebCam: 1.0.2
    ChimeraX-WebServices: 1.1.5
    ChimeraX-Zone: 1.0.1
    colorama: 0.4.6
    comm: 0.2.2
    contourpy: 1.3.2
    coverage: 7.9.1
    cxservices: 1.2.3
    cycler: 0.12.1
    Cython: 3.0.12
    debugpy: 1.8.14
    decorator: 5.2.1
    docutils: 0.21.2
    executing: 2.2.0
    filelock: 3.18.0
    fonttools: 4.58.4
    funcparserlib: 2.0.0a0
    glfw: 2.9.0
    grako: 3.16.5
    h5py: 3.14.0
    html2text: 2024.2.26
    idna: 3.10
    ihm: 2.2
    imagecodecs: 2024.6.1
    imagesize: 1.4.1
    iniconfig: 2.1.0
    ipykernel: 6.29.5
    ipython: 8.26.0
    ipywidgets: 8.1.7
    jedi: 0.19.1
    Jinja2: 3.1.6
    jupyter_client: 8.6.3
    jupyter_core: 5.8.1
    jupyterlab_widgets: 3.0.15
    kiwisolver: 1.4.8
    line_profiler: 4.2.0
    lxml: 5.3.1
    lz4: 4.4.4
    MarkupSafe: 3.0.2
    matplotlib: 3.10.1
    matplotlib-inline: 0.1.7
    msgpack: 1.1.0
    ndindex: 1.10.0
    nest-asyncio: 1.6.0
    netCDF4: 1.6.5
    networkx: 3.3
    nibabel: 5.2.0
    nptyping: 2.5.0
    numexpr: 2.11.0
    numpy: 1.26.4
    OpenMM: 8.2.0
    openvr: 1.26.701
    packaging: 24.2
    ParmEd: 4.2.2
    parso: 0.8.4
    pep517: 0.13.1
    pexpect: 4.9.0
    pickleshare: 0.7.5
    pillow: 10.4.0
    pip: 25.0.1
    pkginfo: 1.11.1
    platformdirs: 4.3.8
    pluggy: 1.6.0
    prompt_toolkit: 3.0.51
    psutil: 7.0.0
    ptyprocess: 0.7.0
    pure_eval: 0.2.3
    py-cpuinfo: 9.0.0
    pycollada: 0.8
    pydicom: 2.4.4
    pyelftools: 0.32
    Pygments: 2.18.0
    pynmrstar: 3.3.5
    pynrrd: 1.0.0
    PyOpenGL: 3.1.9
    PyOpenGL-accelerate: 3.1.9
    pyopenxr: 1.1.4501
    pyparsing: 3.2.3
    pyproject_hooks: 1.2.0
    PyQt6-commercial: 6.8.1
    PyQt6-Qt6: 6.8.2
    PyQt6-WebEngine-commercial: 6.8.0
    PyQt6-WebEngine-Qt6: 6.8.2
    PyQt6_sip: 13.10.0
    pytest: 8.4.1
    pytest-cov: 6.2.1
    python-dateutil: 2.9.0.post0
    pytz: 2025.2
    pyzmq: 27.0.0
    qtconsole: 5.5.2
    QtPy: 2.4.3
    qtshim: 1.1
    RandomWords: 0.4.0
    requests: 2.32.3
    roman-numerals-py: 3.1.0
    scipy: 1.14.0
    setuptools: 78.1.0
    sfftk-rw: 0.8.1
    six: 1.16.0
    snowballstemmer: 3.0.1
    sortedcontainers: 2.4.0
    soupsieve: 2.7
    Sphinx: 8.2.3
    sphinx-autodoc-typehints: 3.1.0
    sphinxcontrib-applehelp: 2.0.0
    sphinxcontrib-blockdiag: 3.0.0
    sphinxcontrib-devhelp: 2.0.0
    sphinxcontrib-htmlhelp: 2.1.0
    sphinxcontrib-jsmath: 1.0.1
    sphinxcontrib-qthelp: 2.0.0
    sphinxcontrib-serializinghtml: 2.0.0
    stack-data: 0.6.3
    superqt: 0.7.1
    tables: 3.10.2
    tcia_utils: 1.5.1
    tifffile: 2025.3.13
    tinyarray: 1.2.4
    tornado: 6.5.1
    traitlets: 5.14.3
    typing_extensions: 4.14.0
    tzdata: 2025.2
    urllib3: 2.5.0
    wcwidth: 0.2.13
    webcolors: 24.11.1
    wheel: 0.45.1
    wheel-filename: 1.4.2
    widgetsnbextension: 4.0.14

Change History (2)

comment:1 by Eric Pettersen, 3 weeks ago

Component:	Unassigned → Graphics
Description:	modified (diff)
Owner:	set to Tom Goddard
Platform:	→ all
Project:	→ ChimeraX
Status:	new → assigned
Summary:	ChimeraX bug report submission → glClear: invalid framebuffer operation on statusbar expose

Reported by James Fleckenstein

comment:2 by Tom Goddard, 3 weeks ago

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

This ChimeraX error is trying to show a status line message and the OpenGL graphics rendering (to draw the text) fails. This is a Qt window toolkit problem and may be related to multiple Mac displays (Qt has many Mac multi-display bugs). It has been reported dozens of times in ChimeraX and we do not have any way to fix it nor can we reproduce it.

Your ChimeraX 1.10 uses Qt version 6.8, the current ChimeraX 1.11 uses Qt version 6.9 and the current ChimeraX daily build uses Qt version 6.10. Using a newer ChimeraX with newer Qt may avoid this error.

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