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#19908 closed defect

glClear: invalid framebuffer operation on statusbar expose — at Version 1

Reported by:	z.campbell@…	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-26.3-arm64-arm-64bit
ChimeraX Version: 1.10 (2025-06-26 08:57:52 UTC)
Description
With a chimera session open, walk away from the computer long enough that it goes to sleep. Upon returning, wake up the computer and focus on the chimerax window. Until "show this message again" is unticked, clicking "ok" on the error prompt just causes it to endlessly reappear.

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

> open
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/20260217_FinaldensitiesWIP.cxs
> format session

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 0 as #11.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 1 as #11.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 2 as #11.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 3 as #11.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 4 as #11.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 0 as #12.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 1 as #12.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 2 as #12.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 3 as #12.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 4 as #12.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 5 as #12.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 6 as #12.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 0 as #13.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 1 as #13.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 2 as #13.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 3 as #13.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 0 as #14.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 1 as #14.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 2 as #14.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 3 as #14.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 4 as #14.5, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 0 as #15.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 1 as #15.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 2 as #15.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 3 as #15.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 4 as #15.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 5 as #15.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 6 as #15.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 0 as #16.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 1 as #16.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 2 as #16.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 3 as #16.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 4 as #16.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 5 as #16.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 6 as #16.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 0 as #17.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 1 as #17.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 2 as #17.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 3 as #17.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 4 as #17.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 5 as #17.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened 60S_filtsharp.mrc as #1, grid size 270,270,270, pixel 2.59, shown at
level 0.00474, step 1, values float32  
Opened Decoding_filtsharp.mrc as #2, grid size 270,270,270, pixel 2.59, shown
at level 0.00591, step 1, values float32  
Opened Hibernating_filtsharp.mrc as #3, grid size 270,270,270, pixel 2.59,
shown at level 0.00507, step 1, values float32  
Opened Int_Post_filtsharp.mrc as #4, grid size 270,270,270, pixel 2.59, shown
at level 0.00705, step 1, values float32  
Opened Post_filtsharp.mrc as #5, grid size 270,270,270, pixel 2.59, shown at
level 0.00678, step 1, values float32  
Opened Rotated_filtlocal.mrc as #6, grid size 270,270,270, pixel 2.59, shown
at level 0.00572, step 1, values float32  
Opened Translocating_filtsharp.mrc as #7, grid size 270,270,270, pixel 2.59,
shown at level 0.00737, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc as #8, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_none_filtsharp.mrc as #9, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened Hibernating_filtsharp.mrc 0 as #20.1, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 1 as #20.2, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 2 as #20.3, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 3 as #20.4, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 4 as #20.5, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 5 as #20.6, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Int_Post_filtsharp.mrc 0 as #19.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 1 as #19.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 2 as #19.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 3 as #19.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 4 as #19.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 5 as #19.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Post_filtsharp.mrc 0 as #21.1, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 1 as #21.2, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 2 as #21.3, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 3 as #21.4, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Rotated_filtlocal.mrc 0 as #22.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 1 as #22.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 2 as #22.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 3 as #22.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 4 as #22.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Translocating_filtsharp.mrc 0 as #23.1, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 1 as #23.2, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 2 as #23.3, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 3 as #23.4, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 4 as #23.5, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 5 as #23.6, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 0 as #24.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 1 as #24.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 2 as #24.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 3 as #24.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 4 as #24.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 5 as #24.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 6 as #24.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 0 as #25.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 1 as #25.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 2 as #25.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 3 as #25.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 4 as #25.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 5 as #25.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened Decoding_filtsharp.mrc 0 as #26.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 1 as #26.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 2 as #26.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 3 as #26.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 4 as #26.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 5 as #26.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 6 as #26.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 0 as #18.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 1 as #18.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 2 as #18.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 3 as #18.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 4 as #18.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 5 as #18.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened Rotated_filt.mrc as #10, grid size 270,270,270, pixel 2.59, shown at
level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 0 as #27.1, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 1 as #27.2, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 2 as #27.3, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 3 as #27.4, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 4 as #27.5, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Fri Feb 20 15:29:20 2026UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/rotationWIP.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 0 as #11.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 1 as #11.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 2 as #11.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 3 as #11.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 4 as #11.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 0 as #12.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 1 as #12.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 2 as #12.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 3 as #12.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 4 as #12.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 5 as #12.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 6 as #12.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 0 as #13.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 1 as #13.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 2 as #13.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 3 as #13.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 0 as #14.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 1 as #14.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 2 as #14.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 3 as #14.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 4 as #14.5, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 0 as #15.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 1 as #15.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 2 as #15.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 3 as #15.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 4 as #15.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 5 as #15.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 6 as #15.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 0 as #16.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 1 as #16.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 2 as #16.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 3 as #16.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 4 as #16.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 5 as #16.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 6 as #16.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 0 as #17.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 1 as #17.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 2 as #17.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 3 as #17.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 4 as #17.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 5 as #17.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened 60S_filtsharp.mrc as #1, grid size 270,270,270, pixel 2.59, shown at
level 0.00474, step 1, values float32  
Opened Decoding_filtsharp.mrc as #2, grid size 270,270,270, pixel 2.59, shown
at level 0.00591, step 1, values float32  
Opened Hibernating_filtsharp.mrc as #3, grid size 270,270,270, pixel 2.59,
shown at level 0.00507, step 1, values float32  
Opened Int_Post_filtsharp.mrc as #4, grid size 270,270,270, pixel 2.59, shown
at level 0.00705, step 1, values float32  
Opened Post_filtsharp.mrc as #5, grid size 270,270,270, pixel 2.59, shown at
level 0.00678, step 1, values float32  
Opened Rotated_filtlocal.mrc as #6, grid size 270,270,270, pixel 2.59, shown
at level 0.00572, step 1, values float32  
Opened Translocating_filtsharp.mrc as #7, grid size 270,270,270, pixel 2.59,
shown at level 0.00737, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc as #8, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_none_filtsharp.mrc as #9, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened Hibernating_filtsharp.mrc 0 as #20.1, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 1 as #20.2, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 2 as #20.3, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 3 as #20.4, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 4 as #20.5, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 5 as #20.6, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Int_Post_filtsharp.mrc 0 as #19.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 1 as #19.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 2 as #19.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 3 as #19.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 4 as #19.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 5 as #19.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Post_filtsharp.mrc 0 as #21.1, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 1 as #21.2, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 2 as #21.3, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 3 as #21.4, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Rotated_filtlocal.mrc 0 as #22.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 1 as #22.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 2 as #22.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 3 as #22.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 4 as #22.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Translocating_filtsharp.mrc 0 as #23.1, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 1 as #23.2, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 2 as #23.3, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 3 as #23.4, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 4 as #23.5, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 5 as #23.6, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 0 as #24.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 1 as #24.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 2 as #24.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 3 as #24.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 4 as #24.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 5 as #24.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 6 as #24.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 0 as #25.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 1 as #25.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 2 as #25.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 3 as #25.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 4 as #25.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 5 as #25.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened Decoding_filtsharp.mrc 0 as #26.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 1 as #26.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 2 as #26.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 3 as #26.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 4 as #26.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 5 as #26.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 6 as #26.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 0 as #18.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 1 as #18.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 2 as #18.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 3 as #18.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 4 as #18.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 5 as #18.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened Rotated_filt.mrc as #10, grid size 270,270,270, pixel 2.59, shown at
level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 0 as #27.1, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 1 as #27.2, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 2 as #27.3, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 3 as #27.4, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 4 as #27.5, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Fri Feb 20 14:46:45 2026UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/20260217_FinaldensitiesWIP.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 0 as #11.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 1 as #11.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 2 as #11.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 3 as #11.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 4 as #11.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 0 as #12.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 1 as #12.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 2 as #12.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 3 as #12.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 4 as #12.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 5 as #12.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 6 as #12.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 0 as #13.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 1 as #13.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 2 as #13.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 3 as #13.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 0 as #14.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 1 as #14.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 2 as #14.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 3 as #14.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 4 as #14.5, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 0 as #15.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 1 as #15.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 2 as #15.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 3 as #15.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 4 as #15.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 5 as #15.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 6 as #15.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 0 as #16.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 1 as #16.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 2 as #16.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 3 as #16.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 4 as #16.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 5 as #16.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 6 as #16.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 0 as #17.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 1 as #17.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 2 as #17.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 3 as #17.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 4 as #17.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 5 as #17.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened 60S_filtsharp.mrc as #1, grid size 270,270,270, pixel 2.59, shown at
level 0.00474, step 1, values float32  
Opened Decoding_filtsharp.mrc as #2, grid size 270,270,270, pixel 2.59, shown
at level 0.00591, step 1, values float32  
Opened Hibernating_filtsharp.mrc as #3, grid size 270,270,270, pixel 2.59,
shown at level 0.00507, step 1, values float32  
Opened Int_Post_filtsharp.mrc as #4, grid size 270,270,270, pixel 2.59, shown
at level 0.00705, step 1, values float32  
Opened Post_filtsharp.mrc as #5, grid size 270,270,270, pixel 2.59, shown at
level 0.00678, step 1, values float32  
Opened Rotated_filtlocal.mrc as #6, grid size 270,270,270, pixel 2.59, shown
at level 0.00572, step 1, values float32  
Opened Translocating_filtsharp.mrc as #7, grid size 270,270,270, pixel 2.59,
shown at level 0.00737, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc as #8, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_none_filtsharp.mrc as #9, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened Hibernating_filtsharp.mrc 0 as #20.1, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 1 as #20.2, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 2 as #20.3, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 3 as #20.4, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 4 as #20.5, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 5 as #20.6, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Int_Post_filtsharp.mrc 0 as #19.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 1 as #19.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 2 as #19.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 3 as #19.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 4 as #19.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 5 as #19.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Post_filtsharp.mrc 0 as #21.1, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 1 as #21.2, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 2 as #21.3, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 3 as #21.4, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Rotated_filtlocal.mrc 0 as #22.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 1 as #22.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 2 as #22.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 3 as #22.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 4 as #22.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Translocating_filtsharp.mrc 0 as #23.1, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 1 as #23.2, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 2 as #23.3, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 3 as #23.4, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 4 as #23.5, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 5 as #23.6, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 0 as #24.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 1 as #24.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 2 as #24.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 3 as #24.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 4 as #24.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 5 as #24.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 6 as #24.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 0 as #25.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 1 as #25.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 2 as #25.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 3 as #25.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 4 as #25.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 5 as #25.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened Decoding_filtsharp.mrc 0 as #26.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 1 as #26.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 2 as #26.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 3 as #26.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 4 as #26.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 5 as #26.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 6 as #26.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 0 as #18.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 1 as #18.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 2 as #18.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 3 as #18.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 4 as #18.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 5 as #18.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Fri Feb 20 10:54:41 2026UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/20260217_FinaldensitiesWIP.cxs
> format session

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 0 as #10.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 1 as #10.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 2 as #10.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 3 as #10.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 4 as #10.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 5 as #10.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 0 as #11.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 1 as #11.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 2 as #11.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 3 as #11.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 4 as #11.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 0 as #12.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 1 as #12.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 2 as #12.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 3 as #12.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 4 as #12.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 5 as #12.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 6 as #12.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 0 as #13.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 1 as #13.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 2 as #13.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 3 as #13.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 0 as #14.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 1 as #14.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 2 as #14.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 3 as #14.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 4 as #14.5, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 0 as #15.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 1 as #15.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 2 as #15.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 3 as #15.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 4 as #15.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 5 as #15.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 6 as #15.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 0 as #16.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 1 as #16.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 2 as #16.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 3 as #16.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 4 as #16.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 5 as #16.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 6 as #16.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 0 as #17.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 1 as #17.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 2 as #17.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 3 as #17.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 4 as #17.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 5 as #17.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened 60S_filtsharp.mrc as #1, grid size 270,270,270, pixel 2.59, shown at
level 0.00474, step 1, values float32  
Opened Decoding_filtsharp.mrc as #2, grid size 270,270,270, pixel 2.59, shown
at level 0.00591, step 1, values float32  
Opened Hibernating_filtsharp.mrc as #3, grid size 270,270,270, pixel 2.59,
shown at level 0.00507, step 1, values float32  
Opened Int_Post_filtsharp.mrc as #4, grid size 270,270,270, pixel 2.59, shown
at level 0.00705, step 1, values float32  
Opened Post_filtsharp.mrc as #5, grid size 270,270,270, pixel 2.59, shown at
level 0.00678, step 1, values float32  
Opened Rotated_filtlocal.mrc as #6, grid size 270,270,270, pixel 2.59, shown
at level 0.00572, step 1, values float32  
Opened Translocating_filtsharp.mrc as #7, grid size 270,270,270, pixel 2.59,
shown at level 0.00737, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc as #8, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_none_filtsharp.mrc as #9, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened Decoding_filtsharp.mrc 0 as #18.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 1 as #18.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 2 as #18.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 3 as #18.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 4 as #18.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 5 as #18.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Decoding_filtsharp.mrc 6 as #18.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00591, step 1, values float32  
Opened Hibernating_filtsharp.mrc 0 as #20.1, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 1 as #20.2, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 2 as #20.3, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 3 as #20.4, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 4 as #20.5, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 5 as #20.6, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Int_Post_filtsharp.mrc 0 as #19.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 1 as #19.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 2 as #19.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 3 as #19.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 4 as #19.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 5 as #19.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Post_filtsharp.mrc 0 as #21.1, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 1 as #21.2, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 2 as #21.3, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 3 as #21.4, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Rotated_filtlocal.mrc 0 as #22.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 1 as #22.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 2 as #22.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 3 as #22.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 4 as #22.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Translocating_filtsharp.mrc 0 as #23.1, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 1 as #23.2, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 2 as #23.3, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 3 as #23.4, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 4 as #23.5, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 5 as #23.6, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 0 as #24.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 1 as #24.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 2 as #24.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 3 as #24.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 4 as #24.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 5 as #24.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 6 as #24.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 0 as #25.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 1 as #25.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 2 as #25.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 3 as #25.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 4 as #25.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 5 as #25.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened LocRes_Bfac_-300_locres_filtered.mrc as #26, grid size 270,270,270,
pixel 2.59, shown at level 0.0132, step 2, values float32  

Not registering illegal selector name "40S"  

Log from Tue Feb 17 16:29:23 2026UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/PlaceholderDensitiesColoured.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_60S.mrc as #1, grid size 128,128,128, pixel 4,
shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc as #2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc as #3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc as #4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc as #5, grid size 128,128,128, pixel
4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc as #6, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc as #7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc as #8, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc as #9, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 0 as #10.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 1 as #10.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 2 as #10.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 3 as #10.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 4 as #10.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 5 as #10.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 0 as #11.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 1 as #11.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 2 as #11.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 3 as #11.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 4 as #11.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 0 as #12.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 1 as #12.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 2 as #12.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 3 as #12.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 4 as #12.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 5 as #12.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 6 as #12.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 0 as #13.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 1 as #13.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 2 as #13.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 3 as #13.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 0 as #14.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 1 as #14.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 2 as #14.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 3 as #14.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 4 as #14.5, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 0 as #15.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 1 as #15.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 2 as #15.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 3 as #15.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 4 as #15.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 5 as #15.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 6 as #15.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 0 as #16.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 1 as #16.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 2 as #16.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 3 as #16.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 4 as #16.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 5 as #16.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 6 as #16.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 0 as #17.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 1 as #17.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 2 as #17.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 3 as #17.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 4 as #17.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 5 as #17.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Mon Feb 9 13:25:44 2026UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/Manuscript1/Ribofigs/PlaceholderDensitiesColoured.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_60S.mrc as #1, grid size 128,128,128, pixel 4,
shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc as #2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc as #3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc as #4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc as #5, grid size 128,128,128, pixel
4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc as #6, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc as #7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc as #8, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc as #9, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 0 as #10.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 1 as #10.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 2 as #10.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 3 as #10.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 4 as #10.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding.mrc 5 as #10.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 0 as #11.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 1 as #11.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 2 as #11.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 3 as #11.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating.mrc 4 as #11.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 0 as #12.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 1 as #12.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 2 as #12.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 3 as #12.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 4 as #12.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 5 as #12.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Int_Post.mrc 6 as #12.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 0 as #13.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 1 as #13.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 2 as #13.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post.mrc 3 as #13.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 0 as #14.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 1 as #14.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 2 as #14.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 3 as #14.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated.mrc 4 as #14.5, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 0 as #15.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 1 as #15.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 2 as #15.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 3 as #15.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 4 as #15.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 5 as #15.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating.mrc 6 as #15.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 0 as #16.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 1 as #16.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 2 as #16.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 3 as #16.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 4 as #16.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 5 as #16.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_cEF2.mrc 6 as #16.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 0 as #17.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 1 as #17.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 2 as #17.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 3 as #17.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 4 as #17.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnPre_none.mrc 5 as #17.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Wed Feb 4 17:42:03 2026UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/Manuscript1/Ribofigs/202602_subunitcolouring.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.7, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Wed Feb 4 15:33:49 2026UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/Manuscript1/202512_subunitcolouring.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc as #1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc as #2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc as #3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc as #4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc as #5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc as #6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc as #7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc as #8, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc as #9, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc as #10, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc as #11, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc as #12, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc as #13, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc as #14, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc as #15, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc as #16, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc as #17, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc as #18, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc as #19, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 0 as #20.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 1 as #20.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 2 as #20.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 3 as #20.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 4 as #20.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 5 as #20.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 6 as #20.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 0 as #21.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 1 as #21.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 2 as #21.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 3 as #21.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 4 as #21.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 5 as #21.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 6 as #21.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 0 as #22.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 1 as #22.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 2 as #22.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 3 as #22.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 4 as #22.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 5 as #22.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 0 as #23.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 1 as #23.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 2 as #23.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 3 as #23.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 4 as #23.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 5 as #23.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 6 as #23.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 0 as #24.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 1 as #24.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 2 as #24.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 3 as #24.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 4 as #24.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 5 as #24.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 6 as #24.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 0 as #25.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 1 as #25.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 2 as #25.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 3 as #25.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 4 as #25.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 5 as #25.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 0 as #26.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 1 as #26.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 2 as #26.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 3 as #26.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 4 as #26.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 0 as #27.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 1 as #27.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 2 as #27.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 3 as #27.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 4 as #27.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc 0 as #28.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc 1 as #28.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc 2 as #28.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc 3 as #28.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 0 as #29.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 1 as #29.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 2 as #29.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 3 as #29.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 4 as #29.5, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 0 as #30.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 1 as #30.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 2 as #30.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 3 as #30.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 4 as #30.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc 0 as #31.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc 1 as #31.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc 2 as #31.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc 3 as #31.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 0 as #32.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 1 as #32.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 2 as #32.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 3 as #32.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 4 as #32.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 0 as #34.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 1 as #34.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 2 as #34.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 3 as #34.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 4 as #34.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 5 as #34.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 6 as #34.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 0 as #35.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 1 as #35.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 2 as #35.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 3 as #35.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 4 as #35.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 5 as #35.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 6 as #35.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 0 as #36.1, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 1 as #36.2, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 2 as #36.3, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 3 as #36.4, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 4 as #36.5, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 5 as #36.6, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 0 as #37.1, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 1 as #37.2, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 2 as #37.3, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 3 as #37.4, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 4 as #37.5, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 5 as #37.6, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 6 as #37.7, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 0 as #38.1, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 1 as #38.2, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 2 as #38.3, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 3 as #38.4, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 4 as #38.5, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 5 as #38.6, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 0 as #33.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 1 as #33.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 2 as #33.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 3 as #33.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 4 as #33.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 5 as #33.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Wed Jan 7 10:53:50 2026UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/Manuscript1/202512_subunitcolouring.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc as #1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc as #2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc as #3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc as #4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc as #5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc as #6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc as #7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc as #8, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc as #9, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc as #10, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc as #11, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc as #12, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc as #13, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc as #14, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc as #15, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc as #16, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc as #17, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc as #18, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc as #19, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 0 as #20.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 1 as #20.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 2 as #20.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 3 as #20.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 4 as #20.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 5 as #20.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_E.mrc 6 as #20.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 0 as #21.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 1 as #21.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 2 as #21.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 3 as #21.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 4 as #21.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 5 as #21.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_IF5.mrc 6 as #21.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 0 as #22.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 1 as #22.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 2 as #22.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 3 as #22.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 4 as #22.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding1_open.mrc 5 as #22.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 0 as #23.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 1 as #23.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 2 as #23.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 3 as #23.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 4 as #23.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 5 as #23.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_E.mrc 6 as #23.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 0 as #24.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 1 as #24.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 2 as #24.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 3 as #24.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 4 as #24.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 5 as #24.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 6 as #24.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 0 as #25.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 1 as #25.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 2 as #25.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 3 as #25.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 4 as #25.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_open.mrc 5 as #25.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 0 as #26.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 1 as #26.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 2 as #26.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 3 as #26.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_E.mrc 4 as #26.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 0 as #27.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 1 as #27.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 2 as #27.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 3 as #27.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 4 as #27.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc 0 as #28.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc 1 as #28.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc 2 as #28.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_open.mrc 3 as #28.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 0 as #29.1, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 1 as #29.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 2 as #29.3, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 3 as #29.4, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 4 as #29.5, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 0 as #30.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 1 as #30.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 2 as #30.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 3 as #30.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_IF5.mrc 4 as #30.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc 0 as #31.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc 1 as #31.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc 2 as #31.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_open.mrc 3 as #31.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 0 as #32.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 1 as #32.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 2 as #32.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 3 as #32.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 4 as #32.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 0 as #33.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 1 as #33.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 2 as #33.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 3 as #33.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 4 as #33.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 5 as #33.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 6 as #33.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 0 as #34.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 1 as #34.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 2 as #34.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 3 as #34.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 4 as #34.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 5 as #34.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 6 as #34.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 0 as #35.1, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 1 as #35.2, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 2 as #35.3, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 3 as #35.4, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 4 as #35.5, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 5 as #35.6, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_IF5.mrc 6 as #35.7, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 0 as #36.1, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 1 as #36.2, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 2 as #36.3, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 3 as #36.4, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 4 as #36.5, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_open.mrc 5 as #36.6, grid size
128,128,128, pixel 4, shown at level 0.5, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 0 as #37.1, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 1 as #37.2, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 2 as #37.3, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 3 as #37.4, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 4 as #37.5, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 5 as #37.6, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 6 as #37.7, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 0 as #38.1, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 1 as #38.2, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 2 as #38.3, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 3 as #38.4, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 4 as #38.5, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_none_IF5.mrc 5 as #38.6, grid
size 128,128,128, pixel 4, shown at level 0.6, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Wed Dec 17 16:42:20 2025UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/Manuscript1/202512_subunitcolouring.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc as #8, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc as #9, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc as #10, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc as #11, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc as #12, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc as #13, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc as #14, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 0 as #1.1, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 1 as #1.2, grid size
128,128,128, pixel 4, shown at level 0.708, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 2 as #1.3, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 3 as #1.4, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 4 as #1.5, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 5 as #1.6, grid size
128,128,128, pixel 4, shown at level 0.614, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc 6 as #1.7, grid size
128,128,128, pixel 4, shown at level 0.527, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 0 as #2.1, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 1 as #2.2, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 2 as #2.3, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 3 as #2.4, grid size
128,128,128, pixel 4, shown at level 0.605, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc 4 as #2.5, grid size
128,128,128, pixel 4, shown at level 0.599, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 0 as #3.1, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 1 as #3.2, grid size 128,128,128,
pixel 4, shown at level 0.608, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 2 as #3.3, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 3 as #3.4, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc 4 as #3.5, grid size 128,128,128,
pixel 4, shown at level 0.599, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 0 as #5.1, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 1 as #5.2, grid size 128,128,128,
pixel 4, shown at level 0.61, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 2 as #5.3, grid size 128,128,128,
pixel 4, shown at level 0.644, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 3 as #5.4, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 4 as #5.5, grid size 128,128,128,
pixel 4, shown at level 0.607, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc 5 as #5.6, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 0 as #6.1, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 1 as #6.2, grid size
128,128,128, pixel 4, shown at level 0.632, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 2 as #6.3, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 3 as #6.4, grid size
128,128,128, pixel 4, shown at level 0.605, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 4 as #6.5, grid size
128,128,128, pixel 4, shown at level 0.616, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc 5 as #6.6, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 0 as #7.1, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 1 as #7.2, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 2 as #7.3, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 3 as #7.4, grid size
128,128,128, pixel 4, shown at level 0.66, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 4 as #7.5, grid size
128,128,128, pixel 4, shown at level 0.569, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 5 as #7.6, grid size
128,128,128, pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc 6 as #7.7, grid size
128,128,128, pixel 4, shown at level 0.62, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 0 as #4.1, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 1 as #4.2, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 2 as #4.3, grid size 128,128,128,
pixel 4, shown at level 0.578, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 3 as #4.4, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc 4 as #4.5, grid size 128,128,128,
pixel 4, shown at level 0.7, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Tue Aug 12 16:48:18 2025UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/202508_subunitcolouring.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.65, step 1, values float32  
Opened MultiPostProcessor_PPout_Decoding2_IF5.mrc as #8, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Hibernating_IF5.mrc as #9, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Post_E.mrc as #10, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated1.mrc as #11, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Rotated2.mrc as #12, grid size 128,128,128,
pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_Translocating_E.mrc as #13, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_UnrotatedPre_cEF2_IF5.mrc as #14, grid size
128,128,128, pixel 4, shown at level 0.6, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Tue Aug 12 16:26:11 2025UCSF ChimeraX version: 1.10 (2025-06-26)  
© 2016-2025 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/subunit_colouring2.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.65, step 1, values float32  
Opened 160_decodingE.mrc as #1, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened 160_hibernatingE.mrc as #2, grid size 128,128,128, pixel 4, shown at
level 0.6, step 1, values float32  
Opened 160_Post?.mrc as #3, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened 160_unr_pre5.mrc as #4, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened 160_hibernating5 as #5, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened 160_rot as #6, grid size 128,128,128, pixel 4, shown at level 0.6, step
1, values float32  
Opened 160_decoding5 as #7, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Wed Jan 15 14:45:55 2025UCSF ChimeraX version: 1.9 (2024-12-11)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/subunit_colouring.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.65, step 1, values float32  
Opened MultiPostProcessor_PPout_9.mrc as #1, grid size 128,128,128, pixel 4,
shown at level 0.65, step 1, values float32  
Opened MultiPostProcessor_PPout_3.mrc as #3, grid size 128,128,128, pixel 4,
shown at level 0.65, step 1, values float32  
Opened MultiPostProcessor_PPout_6.mrc as #4, grid size 128,128,128, pixel 4,
shown at level 0.65, step 1, values float32  
Opened MultiPostProcessor_PPout_7.mrc as #5, grid size 128,128,128, pixel 4,
shown at level 0.65, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Tue Sep 24 13:28:01 2024UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/RibosomeFigures/subunit_colouring.cxs

Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_9.mrc as #1, grid size 128,128,128, pixel 4,
shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_3.mrc as #3, grid size 128,128,128, pixel 4,
shown at level 0.65, step 1, values float32  
Opened MultiPostProcessor_PPout_6.mrc as #4, grid size 128,128,128, pixel 4,
shown at level 0.65, step 1, values float32  
Opened MultiPostProcessor_PPout_7.mrc as #5, grid size 128,128,128, pixel 4,
shown at level 0.65, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Thu Sep 12 05:33:16 2024UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open /Users/campbell/Desktop/Chimera_sessions/subunit_colouring.cxs

Opened EMD-12059_PRE1.mrc as #51, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12061_PRE2.mrc as #52, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12075_PRE3.mrc as #53, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12065_PRE4.mrc as #54, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12074_POST1.mrc as #55, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12062_POST2.mrc as #56, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12064_POST3.mrc as #57, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Opened MultiPostProcessor_PPout_9.mrc as #1, grid size 128,128,128, pixel 4,
shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_9.mrc 0 as #2.1, grid size 128,128,128, pixel
4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_9.mrc 1 as #2.2, grid size 128,128,128, pixel
4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_9.mrc 2 as #2.3, grid size 128,128,128, pixel
4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_9.mrc 3 as #2.4, grid size 128,128,128, pixel
4, shown at level 0.7, step 1, values float32  
Opened MultiPostProcessor_PPout_9.mrc 4 as #2.5, grid size 128,128,128, pixel
4, shown at level 0.7, step 1, values float32  

Not registering illegal selector name "40S"  

Log from Wed Sep 11 21:36:06 2024UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/Conformationassignment/RotationPDBsandEMDBsCombined.cxs

Opened EMD-12059_PRE1.mrc as #51, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12061_PRE2.mrc as #52, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12075_PRE3.mrc as #53, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12065_PRE4.mrc as #54, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12074_POST1.mrc as #55, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12062_POST2.mrc as #56, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12064_POST3.mrc as #57, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.6, step 1, values float32  
Log from Fri Aug 9 12:43:00 2024UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/Conformationassignment/RotationPDBsandEMDBsCombined.cxs

Opened EMD-12059_PRE1.mrc as #51, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12061_PRE2.mrc as #52, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12075_PRE3.mrc as #53, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12065_PRE4.mrc as #54, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12074_POST1.mrc as #55, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12062_POST2.mrc as #56, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened EMD-12064_POST3.mrc as #57, grid size 420,420,420, pixel 1.08, shown at
level 0.03, step 2, values float32  
Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.785, step 1, values float32  
Log from Thu Aug 8 16:15:28 2024UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/Conformationassignment/RotationPDBsandEMDBsCombined.cxs

Opened EMD-12059_PRE1.mrc as #51, grid size 420,420,420, pixel 1.08, shown at
level 0.0451, step 2, values float32  
Opened EMD-12061_PRE2.mrc as #52, grid size 420,420,420, pixel 1.08, shown at
level 0.0416, step 2, values float32  
Opened EMD-12075_PRE3.mrc as #53, grid size 420,420,420, pixel 1.08, shown at
level 0.04, step 2, values float32  
Opened EMD-12065_PRE4.mrc as #54, grid size 420,420,420, pixel 1.08, shown at
level 0.0481, step 2, values float32  
Opened EMD-12074_POST1.mrc as #55, grid size 420,420,420, pixel 1.08, shown at
level 0.038, step 2, values float32  
Opened EMD-12062_POST2.mrc as #56, grid size 420,420,420, pixel 1.08, shown at
level 0.0447, step 2, values float32  
Opened EMD-12064_POST3.mrc as #57, grid size 420,420,420, pixel 1.08, shown at
level 0.0444, step 2, values float32  
Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.785, step 1, values float32  
Log from Thu Aug 8 13:05:51 2024UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  

> open
> /Users/campbell/Desktop/Chimera_sessions/Conformationassignment/RotationPDBsandEMDBsCombined.cxs

Opened EMD-12059_PRE1.mrc as #51, grid size 420,420,420, pixel 1.08, shown at
level 0.0451, step 2, values float32  
Opened EMD-12061_PRE2.mrc as #52, grid size 420,420,420, pixel 1.08, shown at
level 0.0416, step 2, values float32  
Opened EMD-12075_PRE3.mrc as #53, grid size 420,420,420, pixel 1.08, shown at
level 0.04, step 2, values float32  
Opened EMD-12065_PRE4.mrc as #54, grid size 420,420,420, pixel 1.08, shown at
level 0.0481, step 2, values float32  
Opened EMD-12074_POST1.mrc as #55, grid size 420,420,420, pixel 1.08, shown at
level 0.038, step 2, values float32  
Opened EMD-12062_POST2.mrc as #56, grid size 420,420,420, pixel 1.08, shown at
level 0.0447, step 2, values float32  
Opened EMD-12064_POST3.mrc as #57, grid size 420,420,420, pixel 1.08, shown at
level 0.0444, step 2, values float32  
Opened Stable_60S.mrc as #50, grid size 128,128,128, pixel 4, shown at level
0.785, step 1, values float32  
Log from Thu Aug 8 12:51:05 2024UCSF ChimeraX version: 1.8 (2024-06-10)  
© 2016-2024 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open
> /Users/campbell/Desktop/Chimera_sessions/Conformationassignment/Stable_60S.mrc

Opened Stable_60S.mrc as #1, grid size 128,128,128, pixel 4, shown at level
0.818, step 1, values float32  

> volume #1 level 0.7854

> open 3j78

3j78 title:  
Structures of yeast 80S ribosome-tRNA complexes in the rotated and non-rotated
conformations (Class I - non-rotated ribosome with 2 tRNAs) [more info...]  
  
Chain information for 3j78 #2  
---  
Chain | Description | UniProt  
10 | 40S ribosomal protein S10 | RS10A_YEAST 1-105  
11 | 40S ribosomal protein S11 | RS11A_YEAST 1-156  
12 | 40S ribosomal protein S12 | RS12_YEAST 1-143  
13 | 40S ribosomal protein S13 | RS13_YEAST 1-151  
14 | 40S ribosomal protein S14 | RS14A_YEAST 1-137  
15 | 40S ribosomal protein S15 | RS15_YEAST 1-142  
16 | 40S ribosomal protein S16 | RS16A_YEAST 1-143  
17 | 40S ribosomal protein S17 | RS17A_YEAST 1-136  
18 | 40S ribosomal protein S18 | RS18A_YEAST 1-146  
19 | 40S ribosomal protein S19 | RS19A_YEAST 1-144  
1S | 18S ribosomal RNA |   
20 | 40S ribosomal protein S20 | RS20_YEAST 1-121  
21 | 40S ribosomal protein S21 | RS21A_YEAST 1-87  
22 | 40S ribosomal protein S22 | RS22A_YEAST 1-130  
23 | 40S ribosomal protein S23 | RS23A_YEAST 1-145  
24 | 40S ribosomal protein S24 | RS24A_YEAST 1-135  
25 | 40S ribosomal protein S25 | RS25A_YEAST 1-108  
26 | 40S ribosomal protein S26 | RS26A_YEAST 1-119  
27 | 40S ribosomal protein S27 | RS27_YEAST 1-82  
28 | 40S ribosomal protein S28 | RS28A_YEAST 1-67  
29 | 40S ribosomal protein S29 | RS29A_YEAST 1-56  
2S | 25S ribosomal RNA |   
30 | 40S ribosomal protein S30 | RS30A_YEAST 1-63  
31 | 40S ribosomal protein S31 | RS27A_YEAST 1-152  
5S | 5S ribosomal RNA |   
60 | 60S ribosomal protein L10 | RL10_YEAST 1-221  
61 | 60S ribosomal protein L11 | RL11A_YEAST 1-174  
62 | 60S ribosomal protein L12 | RL12A_YEAST 1-165  
63 | 60S ribosomal protein L13 | RL13A_YEAST 1-199  
64 | 60S ribosomal protein L14 | RL14A_YEAST 1-138  
65 | 60S ribosomal protein L15 | RL15A_YEAST 1-204  
66 | 60S ribosomal protein L16 | RL16A_YEAST 1-199  
67 | 60S ribosomal protein L17 | RL17A_YEAST 1-184  
68 | 60S ribosomal protein L18 | RL18A_YEAST 1-186  
69 | 60S ribosomal protein L19 | RL19A_YEAST 1-189  
70 | 60S ribosomal protein L20 | RL20A_YEAST 1-172  
71 | 60S ribosomal protein L21 | RL21A_YEAST 1-160  
72 | 60S ribosomal protein L22 | RL22A_YEAST 1-121  
73 | 60S ribosomal protein L23 | RL23A_YEAST 1-137  
74 | 60S ribosomal protein L24 | RL24A_YEAST 1-155  
75 | 60S ribosomal protein L25 | RL25_YEAST 1-142  
76 | 60S ribosomal protein L26 | RL26A_YEAST 1-127  
77 | 60S ribosomal protein L27 | RL27A_YEAST 1-136  
78 | 60S ribosomal protein L28 | RL28_YEAST 1-149  
79 | 60S ribosomal protein L29 | RL29_YEAST 1-59  
80 | 60S ribosomal protein L30 | RL30_YEAST 1-105  
81 | 60S ribosomal protein L31 | RL31A_YEAST 1-113  
82 | 60S ribosomal protein L32 | RL32_YEAST 1-130  
83 | 60S ribosomal protein L33 | RL33A_YEAST 1-107  
84 | 60S ribosomal protein L34 | RL34A_YEAST 1-121  
85 | 60S ribosomal protein L35 | RL35A_YEAST 1-120  
86 | 60S ribosomal protein L36 | RL36A_YEAST 1-100  
87 | 60S ribosomal protein L37 | RL37A_YEAST 1-88  
88 | 60S ribosomal protein L38 | RL38_YEAST 1-78  
89 | 60S ribosomal protein L39 | RL39_YEAST 1-51  
8S | 5.8S ribosomal RNA |   
90 | 60S ribosomal protein L40 | RL401_YEAST 1-128  
91 | 60S ribosomal protein L41 | RL41A_YEAST 1-25  
92 | 60S ribosomal protein L42 | RL44A_YEAST 1-106  
93 | 60S ribosomal protein L43 | RL43A_YEAST 1-92  
ET PT | P/E-site initiator transfer RNAfMet |   
L1 | 60S ribosomal protein L1 | RL1A_YEAST 1-217  
L2 | 60S ribosomal protein L2 | RL2A_YEAST 1-254  
L3 | 60S ribosomal protein L3 | RL3_YEAST 1-387  
L4 | 60S ribosomal protein L4 | RL4A_YEAST 1-362  
L5 | 60S ribosomal protein L5 | RL5_YEAST 1-297  
L6 | 60S ribosomal protein L6 | RL6A_YEAST 1-176  
L7 | 60S ribosomal protein L7 | RL7A_YEAST 1-244  
L8 | 60S ribosomal protein L8 | RL8A_YEAST 1-256  
L9 | 60S ribosomal protein L9 | RL9A_YEAST 1-191  
MR | messenger RNA |   
P0 | 60S acidic ribosomal protein P0 | RLA0_YEAST 1-312  
RC | Guanine nucleotide-binding protein subunit beta-like protein | GBLP_YEAST 1-319  
S0 | 40S ribosomal protein S0 | RSSA1_YEAST 1-252  
S1 | 40S ribosomal protein S1 | RS3A1_YEAST 1-255  
S2 | 40S ribosomal protein S2 | RS2_YEAST 1-254  
S3 | 40S ribosomal protein S3 | RS3_YEAST 1-240  
S4 | 40S ribosomal protein S4 | RS4A_YEAST 1-261  
S5 | 40S ribosomal protein S5 | RS5_YEAST 1-225  
S6 | 40S ribosomal protein S6 | RS6A_YEAST 1-236  
S7 | 40S ribosomal protein S7 | RS7A_YEAST 1-190  
S8 | 40S ribosomal protein S8 | RS8A_YEAST 1-200  
S9 | 40S ribosomal protein S9 | RS9A_YEAST 1-197  
  

> open 3j77

3j77 title:  
Structures of yeast 80S ribosome-tRNA complexes in the rotated and non-rotated
conformations (Class II - rotated ribosome with 1 tRNA) [more info...]  
  
Chain information for 3j77 #3  
---  
Chain | Description | UniProt  
10 | 40S ribosomal protein S10 | RS10A_YEAST 1-105  
11 | 40S ribosomal protein S11 | RS11A_YEAST 1-156  
12 | 40S ribosomal protein S12 | RS12_YEAST 1-143  
13 | 40S ribosomal protein S13 | RS13_YEAST 1-151  
14 | 40S ribosomal protein S14 | RS14A_YEAST 1-137  
15 | 40S ribosomal protein S15 | RS15_YEAST 1-142  
16 | 40S ribosomal protein S16 | RS16A_YEAST 1-143  
17 | 40S ribosomal protein S17 | RS17A_YEAST 1-136  
18 | 40S ribosomal protein S18 | RS18A_YEAST 1-146  
19 | 40S ribosomal protein S19 | RS19A_YEAST 1-144  
1S | 18S ribosomal RNA |   
20 | 40S ribosomal protein S20 | RS20_YEAST 1-121  
21 | 40S ribosomal protein S21 | RS21A_YEAST 1-87  
22 | 40S ribosomal protein S22 | RS22A_YEAST 1-130  
23 | 40S ribosomal protein S23 | RS23A_YEAST 1-145  
24 | 40S ribosomal protein S24 | RS24A_YEAST 1-135  
25 | 40S ribosomal protein S25 | RS25A_YEAST 1-108  
26 | 40S ribosomal protein S26 | RS26A_YEAST 1-119  
27 | 40S ribosomal protein S27 | RS27_YEAST 1-82  
28 | 40S ribosomal protein S28 | RS28A_YEAST 1-67  
29 | 40S ribosomal protein S29 | RS29A_YEAST 1-56  
2S | 25S ribosomal RNA |   
30 | 40S ribosomal protein S30 | RS30A_YEAST 1-63  
31 | 40S ribosomal protein S31 | RS27A_YEAST 1-152  
5S | 5S ribosomal RNA |   
60 | 60S ribosomal protein L10 | RL10_YEAST 1-221  
61 | 60S ribosomal protein L11 | RL11A_YEAST 1-174  
62 | 60S ribosomal protein L12 | RL12A_YEAST 1-165  
63 | 60S ribosomal protein L13 | RL13A_YEAST 1-199  
64 | 60S ribosomal protein L14 | RL14A_YEAST 1-138  
65 | 60S ribosomal protein L15 | RL15A_YEAST 1-204  
66 | 60S ribosomal protein L16 | RL16A_YEAST 1-199  
67 | 60S ribosomal protein L17 | RL17A_YEAST 1-184  
68 | 60S ribosomal protein L18 | RL18A_YEAST 1-186  
69 | 60S ribosomal protein L19 | RL19A_YEAST 1-189  
70 | 60S ribosomal protein L20 | RL20A_YEAST 1-172  
71 | 60S ribosomal protein L21 | RL21A_YEAST 1-160  
72 | 60S ribosomal protein L22 | RL22A_YEAST 1-121  
73 | 60S ribosomal protein L23 | RL23A_YEAST 1-137  
74 | 60S ribosomal protein L24 | RL24A_YEAST 1-155  
75 | 60S ribosomal protein L25 | RL25_YEAST 1-142  
76 | 60S ribosomal protein L26 | RL26A_YEAST 1-127  
77 | 60S ribosomal protein L27 | RL27A_YEAST 1-136  
78 | 60S ribosomal protein L28 | RL28_YEAST 1-149  
79 | 60S ribosomal protein L29 | RL29_YEAST 1-59  
80 | 60S ribosomal protein L30 | RL30_YEAST 1-105  
81 | 60S ribosomal protein L31 | RL31A_YEAST 1-113  
82 | 60S ribosomal protein L32 | RL32_YEAST 1-130  
83 | 60S ribosomal protein L33 | RL33A_YEAST 1-107  
84 | 60S ribosomal protein L34 | RL34A_YEAST 1-121  
85 | 60S ribosomal protein L35 | RL35A_YEAST 1-120  
86 | 60S ribosomal protein L36 | RL36A_YEAST 1-100  
87 | 60S ribosomal protein L37 | RL37A_YEAST 1-88  
88 | 60S ribosomal protein L38 | RL38_YEAST 1-78  
89 | 60S ribosomal protein L39 | RL39_YEAST 1-51  
8S | 5.8S ribosomal RNA |   
90 | 60S ribosomal protein L40 | RL401_YEAST 1-128  
91 | 60S ribosomal protein L41 | RL41A_YEAST 1-25  
92 | 60S ribosomal protein L42 | RL44A_YEAST 1-106  
93 | 60S ribosomal protein L43 | RL43A_YEAST 1-92  
L1 | 60S ribosomal protein L1 | RL1A_YEAST 1-217  
L2 | 60S ribosomal protein L2 | RL2A_YEAST 1-254  
L3 | 60S ribosomal protein L3 | RL3_YEAST 1-387  
L4 | 60S ribosomal protein L4 | RL4A_YEAST 1-362  
L5 | 60S ribosomal protein L5 | RL5_YEAST 1-297  
L6 | 60S ribosomal protein L6 | RL6A_YEAST 1-176  
L7 | 60S ribosomal protein L7 | RL7A_YEAST 1-244  
L8 | 60S ribosomal protein L8 | RL8A_YEAST 1-256  
L9 | 60S ribosomal protein L9 | RL9A_YEAST 1-191  
MR | messenger RNA |   
P0 | 60S acidic ribosomal protein P0 | RLA0_YEAST 1-312  
PT | P/E-site initiator transfer RNAfMet |   
RC | Guanine nucleotide-binding protein subunit beta-like protein | GBLP_YEAST 1-319  
S0 | 40S ribosomal protein S0 | RSSA1_YEAST 1-252  
S1 | 40S ribosomal protein S1 | RS3A1_YEAST 1-255  
S2 | 40S ribosomal protein S2 | RS2_YEAST 1-254  
S3 | 40S ribosomal protein S3 | RS3_YEAST 1-240  
S4 | 40S ribosomal protein S4 | RS4A_YEAST 1-261  
S5 | 40S ribosomal protein S5 | RS5_YEAST 1-225  
S6 | 40S ribosomal protein S6 | RS6A_YEAST 1-236  
S7 | 40S ribosomal protein S7 | RS7A_YEAST 1-190  
S8 | 40S ribosomal protein S8 | RS8A_YEAST 1-200  
S9 | 40S ribosomal protein S9 | RS9A_YEAST 1-197  
  

> open 7osm

7osm title:  
Intermediate translocation complex of 80 S.cerevisiae ribosome with eEF2 and
ligands [more info...]  
  
Chain information for 7osm #4  
---  
Chain | Description | UniProt  
18S | 18S rRNA |   
25S | 25S rRNA |   
58S | 5.8S rRNA |   
AB | 5S rRNA |   
ASIT | PHE tRNA |   
PSIT | FMET tRNA |   
RACK | BJ4_G0022010.mRNA.1.CDS.1 | A0A6L1BKH8_YEASX 1-319  
eEF2 | Elongation factor 2 | A0A6A5Q7K2_YEASX 1-842  
eL13 | 60S ribosomal protein L13 | A0A6L1AF71_YEASX 1-199  
eL14 | 60S ribosomal protein L14-A | RL14A_YEAST 1-138  
eL15 | 60S ribosomal protein L15-A | RL15A_YEAST 1-204  
eL18 | BJ4_G0033900.mRNA.1.CDS.1 | A0A6L1A7F6_YEASX 1-186  
eL19 | 60S ribosomal protein L19-A | RL19A_YEAST 1-189  
eL20 | 60S ribosomal protein L20 | A0A6V8RR03_YEASX 1-172  
eL21 | BJ4_G0003770.mRNA.1.CDS.1 | A0A6L0YTI6_YEASX 1-160  
eL22 | 60S ribosomal protein L22-A | A0A6L0ZZW6_YEASX 1-121  
eL24 | 60S ribosomal protein L24-A | A0A6A5PY83_YEASX 1-155  
eL27 | 60S ribosomal protein L27 | A0A6L0ZQQ7_YEASX 1-136  
eL29 | 60S ribosomal protein L29 | A0A6A5PWR1_YEASX 1-59  
eL30 | BJ4_G0020000.mRNA.1.CDS.1 | A0A6L0ZM08_YEASX 1-105  
eL31 | BJ4_G0008090.mRNA.1.CDS.1 | A0A6L0YFR2_YEASX 1-113  
eL32 | HN1_G0013350.mRNA.1.CDS.1 | A0A7I9CD28_YEASX 1-130  
eL33 | BJ4_G0025510.mRNA.1.CDS.1 | A0A6L1C3H0_YEASX 1-107  
eL34 | 60S ribosomal protein L34-A | A0A6L0ZFW3_YEASX 1-121  
eL36 | 60S ribosomal protein L36-A | RL36A_YEAST 1-100  
eL37 | Ribosomal protein L37 | A0A6L1BIE7_YEASX 1-88  
eL38 | BJ4_G0032190.mRNA.1.CDS.1 | A0A6A5PUL8_YEASX 1-78  
eL39 | 60S ribosomal protein L39 | A0A6L1ASX0_YEASX 1-51  
eL40 | Ubiquitin | A0A6V8S9K0_YEASX 1-128  
eL41 | eL41 |   
eL42 | BJ4_G0001880.mRNA.1.CDS.1 | A0A6L1B5X0_YEASX 1-106  
eL43 | 60S ribosomal protein L43-A | RL43A_YEAST 1-92  
eL6 | 60S ribosomal protein L6 | A0A6L1BLT3_YEASX 1-176  
eL8 | 60S ribosomal protein L8-A | RL8A_YEAST 1-256  
eS1 | 40S ribosomal protein S1 | A0A6A5PRY4_YEASX 1-255  
eS10 | 40S ribosomal protein S10-A | A0A6L0ZM59_YEASX 1-105  
eS17 | BJ4_G0020710.mRNA.1.CDS.1 | A0A6L1BLL7_YEASX 1-136  
eS19 | 40S ribosomal protein S19-A | A0A6L1BWT3_YEASX 1-144  
eS21 | 40S ribosomal protein S21 | A0A6L1BDN3_YEASX 1-87  
eS24 | 40S ribosomal protein S24 | A0A6L1AUB6_YEASX 1-135  
eS25 | 40S ribosomal protein S25 | A0A6A5PZ18_YEASX 1-108  
eS26 | 40S ribosomal protein S26 | A0A6A5PUG0_YEASX 1-119  
eS27 | 40S ribosomal protein S27-A | RS27A_YEAST 1-82  
eS28 | eS28 | A0A6A5Q700_YEASX 1-67  
eS30 | 40S ribosomal protein S30 | A0A6L1A1E1_YEASX 1-63  
eS31 | Ubiquitin-40S ribosomal protein S31 | A0A6A5PU37_YEASX 1-152  
eS4 | 40S ribosomal protein S4 | A0A6L0Z3Q0_YEASX 1-261  
eS6 | 40S ribosomal protein S6 | A0A6L1AMY1_YEASX 1-236  
eS7 | 40S ribosomal protein S7 | A0A6L1ACT7_YEASX 1-190  
eS8 | 40S ribosomal protein S8 | A0A6A5Q1H1_YEASX 1-200  
mRNA | MRNA |   
uL10 | 60S acidic ribosomal protein P0 | A0A6A5PT43_YEASX 1-312  
uL11 | 60S ribosomal protein L12-B | A0A6A5Q275_YEASX 1-165  
uL13 | 60S ribosomal protein L16-A | A0A6L0ZD57_YEASX 1-199  
uL14 | 60S ribosomal protein L23-B | A0A6L0Z7E4_YEASX 1-137  
uL15 | 60S ribosomal protein L28 | A0A6L0ZDK5_YEASX 1-149  
uL16 | 60S ribosomal protein L10 | A0A6A5PUZ5_YEASX 1-221  
uL18 | 60S ribosomal protein L5 | A0A6A5Q0W8_YEASX 1-297  
uL2 | 60S ribosomal protein L2-B | A0A6L0Y8L2_YEASX 1-254  
uL22 | BJ4_G0005750.mRNA.1.CDS.1 | A0A6L1BCL1_YEASX 1-184  
uL23 | 60S ribosomal protein L25 | A0A6L0YSM0_YEASX 1-142  
uL24 | 60S ribosomal protein L26-A | RL26A_YEAST 1-127  
uL29 | BJ4_G0044250.mRNA.1.CDS.1 | A0A7I9BRN0_YEASX 1-120  
uL3 | 60S ribosomal protein L3 | A0A6A5Q627_YEASX 1-387  
uL30 | 60S ribosomal protein L7-A | A0A6V8RJA7_YEASX 1-244  
uL4 | BJ4_G0008850.mRNA.1.CDS.1 | A0A6A5Q3W0_YEASX 1-362  
uL5 | BJ4_G0027750.mRNA.1.CDS.1 | A0A6A5Q7I9_YEASX 1-174  
uL6 | 60S ribosomal protein L9-A | RL9A_YEAST 1-191  
uS10 | 40S ribosomal protein S20 | A0A6A5PVE9_YEASX 1-121  
uS11 | 40S ribosomal protein S14-A | A0A6L1AAG7_YEASX 1-137  
uS12 | 40S ribosomal protein S23 | A0A6L1B1T2_YEASX 1-145  
uS13 | 40S ribosomal protein S18-B | A0A6L1AIT6_YEASX 1-146  
uS14 | HLJ1_G0030400.mRNA.1.CDS.1 | A0A6A5PV92_YEASX 1-56  
uS15 | 40S ribosomal protein S13 | A0A6L0YFM5_YEASX 1-151  
uS17 | 40S ribosomal protein S11-B | A0A6L0YMX6_YEASX 1-156  
uS19 | 40S ribosomal protein S15 | A0A6A5Q6F2_YEASX 1-142  
uS2 | 40S ribosomal protein S0 | A0A6L0ZRP4_YEASX 1-252  
uS3 | BJ4_G0045400.mRNA.1.CDS.1 | A0A6L0ZVK6_YEASX 1-240  
uS4 | BJ4_G0026100.mRNA.1.CDS.1 | A0A7I9GPQ3_YEASX 1-197  
uS5 | 40S ribosomal protein S2 | A0A6A5PWF7_YEASX 1-254  
uS7 | Rps5p | A0A1L4AA68_YEASX 1-225  
uS8 | 40S ribosomal protein S22-A | A0A6A5PSE9_YEASX 1-130  
uS9 | BJ4_G0008010.mRNA.1.CDS.1 | A0A6L0YQ58_YEASX 1-143  
  
Non-standard residues in 7osm #4  
---  
DDE — {3-[4-(2-amino-2-carboxy-ethyl)-1H-imidazol-2-yl]-1-carbamoyl-
propyl}-trimethyl-ammonium (diphthamide;
2-(3-carboxyamido-3-(trimethylammonio)propyl)histidine)  
GTP — guanosine-5'-triphosphate  
MG — magnesium ion  
YG — wybutosine (Y-base; 1H-imidazo(1,2-α)purine-7-butanoic
acid,4,9-dihydro-α-((methoxycarbonyl)amino)-4,6-dimethyl-9-oxo-methyl ester)  
ZN — zinc ion  
  
7 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  

> open
> /Volumes/sd18G003/SubtomoAveraging/Chimera_Templates_ForID/Yeast_RibosomalStates/EMD-12059_PRE1.mrc

Opened EMD-12059_PRE1.mrc as #5, grid size 420,420,420, pixel 1.08, shown at
level 0.0451, step 2, values float32  

> open
> /Volumes/sd18G003/SubtomoAveraging/Chimera_Templates_ForID/Yeast_RibosomalStates/EMD*

Opened EMD-12059_PRE1.mrc as #6.1, grid size 420,420,420, pixel 1.08, shown at
level 0.0451, step 2, values float32  
Opened EMD-12061_PRE2.mrc as #6.2, grid size 420,420,420, pixel 1.08, shown at
level 0.0416, step 2, values float32  
Opened EMD-12062_POST2.mrc as #6.3, grid size 420,420,420, pixel 1.08, shown
at level 0.0447, step 2, values float32  
Opened EMD-12064_POST3.mrc as #6.4, grid size 420,420,420, pixel 1.08, shown
at level 0.0444, step 2, values float32  
Opened EMD-12065_PRE4.mrc as #6.5, grid size 420,420,420, pixel 1.08, shown at
level 0.0481, step 2, values float32  
Opened EMD-12074_POST1.mrc as #6.6, grid size 420,420,420, pixel 1.08, shown
at level 0.038, step 2, values float32  
Opened EMD-12075_PRE3.mrc as #6.7, grid size 420,420,420, pixel 1.08, shown at
level 0.04, step 2, values float32  

> close #5

> rename #6.1 id #51

> rename #6.2 id #52

> rename #6.7 id #53

> rename #6.5 id #54

> rename #6.6 id #55

> rename #6.3 id #56

> rename #6.4 id #57

> close #6

> rename #1 id #50

> rename #2 id #58

> rename #3 id #59

> rename #4 id #60

> hide #!57 models

> hide #!56 models

> hide #!55 models

> hide #!54 models

> hide #!53 models

> hide #!52 models

> hide #!51 models

> hide #!60 models

> select add #58

209136 atoms, 224719 bonds, 4513 pseudobonds, 17082 residues, 3 models
selected  

> select add #59

416887 atoms, 447826 bonds, 8941 pseudobonds, 34146 residues, 6 models
selected  

> ui mousemode right "translate selected models"

> view matrix models
> #58,1,0,0,-117.54,0,1,0,292.39,0,0,1,120.16,#59,1,0,0,-117.54,0,1,0,292.39,0,0,1,120.16

> view matrix models
> #58,0.047802,-0.56438,0.82413,-9.4466,0.18248,0.81612,0.54831,190.81,-0.98205,0.12418,0.142,427.21,#59,0.047802,-0.56438,0.82413,-9.4466,0.18248,0.81612,0.54831,190.81,-0.98205,0.12418,0.142,427.21

> view matrix models
> #58,-0.93505,0.1888,-0.30007,243.43,0.21314,-0.377,-0.90136,644.4,-0.2833,-0.90677,0.31227,442.92,#59,-0.93505,0.1888,-0.30007,243.43,0.21314,-0.377,-0.90136,644.4,-0.2833,-0.90677,0.31227,442.92

> view matrix models
> #58,-0.93505,0.1888,-0.30007,441.53,0.21314,-0.377,-0.90136,465.28,-0.2833,-0.90677,0.31227,431.52,#59,-0.93505,0.1888,-0.30007,441.53,0.21314,-0.377,-0.90136,465.28,-0.2833,-0.90677,0.31227,431.52

> view matrix models
> #58,-0.98435,0.16015,-0.073522,413.56,0.039404,-0.20661,-0.97763,481.6,-0.17176,-0.96523,0.19707,442.61,#59,-0.98435,0.16015,-0.073522,413.56,0.039404,-0.20661,-0.97763,481.6,-0.17176,-0.96523,0.19707,442.61

> view matrix models
> #58,-0.98435,0.16015,-0.073522,406.83,0.039404,-0.20661,-0.97763,478.19,-0.17176,-0.96523,0.19707,430.64,#59,-0.98435,0.16015,-0.073522,406.83,0.039404,-0.20661,-0.97763,478.19,-0.17176,-0.96523,0.19707,430.64

> view matrix models
> #58,-0.99467,-0.059558,-0.084223,446.48,0.089527,-0.092834,-0.99165,453.41,0.051242,-0.9939,0.097671,414.56,#59,-0.99467,-0.059558,-0.084223,446.48,0.089527,-0.092834,-0.99165,453.41,0.051242,-0.9939,0.097671,414.56

> view matrix models
> #58,-0.99467,-0.059558,-0.084223,461.63,0.089527,-0.092834,-0.99165,447.36,0.051242,-0.9939,0.097671,407.26,#59,-0.99467,-0.059558,-0.084223,461.63,0.089527,-0.092834,-0.99165,447.36,0.051242,-0.9939,0.097671,407.26

> hide #!58 models

> hide #!59 models

> select subtract #58

207751 atoms, 223107 bonds, 4428 pseudobonds, 17064 residues, 3 models
selected  

> select subtract #59

Nothing selected  

> select add #60

207066 atoms, 221714 bonds, 5069 pseudobonds, 17603 residues, 4 models
selected  

> show #!60 models

> view matrix models #60,1,0,0,30.223,0,1,0,-76.385,0,0,1,86.982

> view matrix models
> #60,-0.1909,-0.6662,0.72092,-79.235,0.2144,-0.745,-0.63168,-29.647,0.95791,0.033981,0.28505,182.3

> view matrix models
> #60,-0.1909,-0.6662,0.72092,272.21,0.2144,-0.745,-0.63168,99.433,0.95791,0.033981,0.28505,145.82

> view matrix models
> #60,-0.1909,-0.6662,0.72092,231.98,0.2144,-0.745,-0.63168,288.75,0.95791,0.033981,0.28505,256.4

> view matrix models
> #60,-0.1909,-0.6662,0.72092,220.48,0.2144,-0.745,-0.63168,271.39,0.95791,0.033981,0.28505,273.19

> view matrix models
> #60,-0.1909,-0.6662,0.72092,200.51,0.2144,-0.745,-0.63168,287.71,0.95791,0.033981,0.28505,279.52

> view matrix models
> #60,-0.1943,-0.64929,0.7353,199.48,0.18966,-0.76031,-0.62126,285.72,0.96243,0.018745,0.27087,280.61

> view matrix models
> #60,-0.19366,-0.64908,0.73565,199.49,0.18995,-0.76047,-0.62097,285.71,0.9625,0.019475,0.27057,280.64

> view matrix models
> #60,-0.19366,-0.64908,0.73565,58.411,0.18995,-0.76047,-0.62097,290.37,0.9625,0.019475,0.27057,425.03

> view matrix models
> #60,-0.19366,-0.64908,0.73565,68.216,0.18995,-0.76047,-0.62097,298.2,0.9625,0.019475,0.27057,398.35

> view matrix models
> #60,-0.15452,-0.63129,0.76,68.815,0.16318,-0.77498,-0.61056,296.1,0.97442,0.029671,0.22276,401.98

> view matrix models
> #60,-0.063398,-0.58719,0.80696,70.821,0.37414,-0.7636,-0.52625,302.06,0.9252,0.26855,0.2681,397.09

> view matrix models
> #60,-0.063398,-0.58719,0.80696,200.63,0.37414,-0.7636,-0.52625,291.05,0.9252,0.26855,0.2681,277.96

> view matrix models
> #60,-0.077351,-0.71118,0.69874,206.35,0.27899,-0.68829,-0.66965,295.1,0.95717,0.14314,0.25165,280.39

> view matrix models
> #60,-0.077351,-0.71118,0.69874,172.53,0.27899,-0.68829,-0.66965,285.5,0.95717,0.14314,0.25165,259.59

> view matrix models
> #60,-0.11357,-0.63814,0.7615,166.87,0.16776,-0.76777,-0.61837,276.24,0.97926,0.05752,0.19425,264.14

> view matrix models
> #60,-0.065429,-0.38484,0.92066,160.09,0.3426,-0.87522,-0.3415,268.04,0.9372,0.29308,0.18911,262.76

> view matrix models
> #60,-0.089808,-0.55289,0.8284,164.16,0.23079,-0.82068,-0.52271,273.51,0.96885,0.14425,0.20131,263.34

> view matrix models
> #60,-0.40852,-0.31261,0.85755,146,0.017455,-0.94202,-0.33509,250.26,0.91258,-0.12192,0.39029,248.01

> view matrix models
> #60,-0.40852,-0.31261,0.85755,187.02,0.017455,-0.94202,-0.33509,265.7,0.91258,-0.12192,0.39029,271.54

> fitmap #60 inMap #50

Fit molecule 7osm (#60) to map Stable_60S.mrc (#50) using 207066 atoms  
average map value = 0.5435, steps = 140  
shifted from previous position = 19.7  
rotated from previous position = 20.6 degrees  
atoms outside contour = 120599, contour level = 0.78541  
  
Position of 7osm (#60) relative to Stable_60S.mrc (#50) coordinates:  
Matrix rotation and translation  
-0.63997038 -0.43579527 0.63286681 170.45881580  
0.18921705 -0.88763255 -0.41988733 275.56308451  
0.74473809 -0.14896626 0.65051843 258.43697340  
Axis 0.39245224 -0.16205507 0.90538356  
Axis point -1.96148654 167.78399005 0.00000000  
Rotation angle (degrees) 159.80816941  
Shift along axis 256.22513556  
  

> select subtract #60

Nothing selected  

> hide #!60 models

> show #!59 models

> show #!58 models

> fitmap #58,59 inMap #50 eachModel true

Fit molecule 3j78 (#58) to map Stable_60S.mrc (#50) using 209136 atoms  
average map value = 0.536, steps = 120  
shifted from previous position = 14.2  
rotated from previous position = 7.72 degrees  
atoms outside contour = 124816, contour level = 0.78541  
  
Position of 3j78 (#58) relative to Stable_60S.mrc (#50) coordinates:  
Matrix rotation and translation  
-0.98102588 0.01790903 -0.19304790 463.65700684  
0.19035572 -0.09993326 -0.97661561 413.13011549  
-0.03678215 -0.99483296 0.09462803 421.25284843  
Axis -0.07804262 -0.66943825 0.73875692  
Axis point 237.74694936 415.79906020 -0.00000000  
Rotation angle (degrees) 173.29749896  
Shift along axis -1.54665500  
  
Fit molecule 3j77 (#59) to map Stable_60S.mrc (#50) using 207751 atoms  
average map value = 0.5386, steps = 104  
shifted from previous position = 13.9  
rotated from previous position = 7.09 degrees  
atoms outside contour = 123766, contour level = 0.78541  
  
Position of 3j77 (#59) relative to Stable_60S.mrc (#50) coordinates:  
Matrix rotation and translation  
-0.98556694 0.03244676 -0.16614759 456.60442131  
0.16277054 -0.08804099 -0.98272811 417.68563668  
-0.04651414 -0.99558826 0.08148891 425.91785735  
Axis -0.07250270 -0.67446685 0.73473657  
Axis point 236.72585691 418.13478086 0.00000000  
Rotation angle (degrees) 174.91190029  
Shift along axis -1.88274629  
  

> hide #!58 models

> hide #!59 models

> show #!51 models

> show #!52 models

> show #53-57

> hide #!50 models

> show #!50 models

> hide #!52 models

> hide #!53 models

> hide #!54 models

> hide #!55 models

> hide #!56 models

> hide #!57 models

> select add #51

2 models selected  

> view matrix models #51,1,0,0,-267.42,0,1,0,-49.624,0,0,1,51.868

> view matrix models
> #51,0.41873,-0.62266,0.66103,-144.85,0.47864,0.76993,0.42203,-186.92,-0.77173,0.13968,0.62042,261.92

> view matrix models
> #51,0.389,-0.63409,0.66828,-137.58,0.48271,0.75816,0.43839,-188.57,-0.78464,0.15206,0.60101,265.92

> view matrix models
> #51,-0.64044,0.45125,0.62146,-123,-0.13992,0.72709,-0.67213,162.27,-0.75515,-0.51742,-0.40252,583.08

> view matrix models
> #51,-0.86338,0.21384,-0.45699,176.89,0.48883,0.13022,-0.8626,181.91,-0.12495,-0.96815,-0.21697,501.97

> view matrix models
> #51,-0.93545,0.084084,-0.34332,196.48,0.3491,0.06759,-0.93464,238,-0.055383,-0.99416,-0.092581,468.55

> view matrix models
> #51,-0.93545,0.084084,-0.34332,499.97,0.3491,0.06759,-0.93464,367.05,-0.055383,-0.99416,-0.092581,543.36

> view matrix models
> #51,-0.9416,0.14666,-0.30313,481.24,0.31197,0.040993,-0.94921,383.06,-0.12678,-0.98834,-0.084352,555.96

> view matrix models
> #51,-0.98147,0.045878,-0.18602,487.52,0.18529,-0.019884,-0.98248,428.64,-0.048773,-0.99875,0.011015,523.16

> view matrix models
> #51,-0.9873,0.11812,-0.10625,459.29,0.11491,0.069092,-0.99097,427.71,-0.10971,-0.99059,-0.081787,552.25

> view matrix models
> #51,-0.9873,0.11812,-0.10625,455.45,0.11491,0.069092,-0.99097,439.58,-0.10971,-0.99059,-0.081787,540.5

> view matrix models
> #51,-0.9873,0.11812,-0.10625,471.82,0.11491,0.069092,-0.99097,414.48,-0.10971,-0.99059,-0.081787,506.76

> view matrix models
> #51,-0.9889,0.093681,-0.11532,478.74,0.11984,0.044083,-0.99181,418.54,-0.08783,-0.99463,-0.054821,497.73

> view matrix models
> #51,-0.98704,0.11837,-0.10838,472.12,0.11134,0.018649,-0.99361,425.75,-0.1156,-0.99279,-0.031587,498.91

> view matrix models
> #51,-0.98785,0.12141,-0.096995,466.7,0.10081,0.025683,-0.99457,430.49,-0.11826,-0.99227,-0.037611,503.62

> view matrix models
> #51,-0.96766,0.078848,-0.23962,497.92,0.23822,-0.026935,-0.97084,406.93,-0.083003,-0.99652,0.0072808,488.37

> view matrix models
> #51,-0.96766,0.078848,-0.23962,495.76,0.23822,-0.026935,-0.97084,409.67,-0.083003,-0.99652,0.0072808,491.65

> view matrix models
> #51,-0.96766,0.078848,-0.23962,494.37,0.23822,-0.026935,-0.97084,408.77,-0.083003,-0.99652,0.0072808,489.92

> fitmap #51-57 inMap #50 eachModel false

Multiple maps for #51-57  

> fitmap #51-57 inMap #50

Multiple maps for #51-57  

> fitmap #51-57 inMap #50

Multiple maps for #51-57  

> fitmap #51-57 inMap #50 eachModel true

Fit map EMD-12059_PRE1.mrc in map Stable_60S.mrc using 92586 points  
correlation = 0.7934, correlation about mean = 0.2582, overlap = 4659  
steps = 100, shift = 9.53, angle = 6.76 degrees  
  
Position of EMD-12059_PRE1.mrc (#51) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
-0.98788767 0.05118552 -0.14648547 490.76807290  
0.14187690 -0.08435513 -0.98628351 453.98836765  
-0.06284023 -0.99512022 0.07607135 472.88600604  
Axis -0.07144167 -0.67624183 0.73320739  
Axis point 258.77332438 455.43300803 0.00000000  
Rotation angle (degrees) 176.45424201  
Shift along axis 4.65630110  
  
Fit map EMD-12061_PRE2.mrc in map Stable_60S.mrc using 92518 points  
correlation = 0.7775, correlation about mean = 0.1955, overlap = 3041  
steps = 188, shift = 27.7, angle = 37.8 degrees  
  
Position of EMD-12061_PRE2.mrc (#52) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.79011675 -0.60167214 -0.11707329 201.19363740  
0.59899339 0.79843877 -0.06084775 -57.34886433  
0.13008625 -0.02204930 0.99125748 -33.34908009  
Axis 0.03163464 -0.20152359 0.97897267  
Axis point 191.05318731 268.51937514 0.00000000  
Rotation angle (degrees) 37.82322508  
Shift along axis -14.72600065  
  
Fit map EMD-12075_PRE3.mrc in map Stable_60S.mrc using 92602 points  
correlation = 0.7786, correlation about mean = 0.1706, overlap = 2906  
steps = 156, shift = 28.2, angle = 36.5 degrees  
  
Position of EMD-12075_PRE3.mrc (#53) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.80499358 -0.58571279 -0.09447675 189.86481995  
0.58158900 0.81051817 -0.06938689 -53.20671130  
0.11721591 0.00090937 0.99310604 -38.26918018  
Axis 0.05915088 -0.17812907 0.98222768  
Axis point 182.97467338 264.94571251 0.00000000  
Rotation angle (degrees) 36.45643600  
Shift along axis -16.88071446  
  
Fit map EMD-12065_PRE4.mrc in map Stable_60S.mrc using 92599 points  
correlation = 0.7668, correlation about mean = 0.224, overlap = 4192  
steps = 192, shift = 29.5, angle = 39.2 degrees  
  
Position of EMD-12065_PRE4.mrc (#54) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.77722807 -0.62453842 -0.07660480 199.93471210  
0.61720065 0.78039292 -0.10025092 -45.98020557  
0.12239239 0.03063729 0.99200880 -47.17160835  
Axis 0.10351998 -0.15738763 0.98209610  
Axis point 172.31047256 261.71781049 0.00000000  
Rotation angle (degrees) 39.21174668  
Shift along axis -18.39310044  
  
Fit map EMD-12074_POST1.mrc in map Stable_60S.mrc using 92601 points  
correlation = 0.7779, correlation about mean = 0.1978, overlap = 2745  
steps = 176, shift = 27.1, angle = 35.3 degrees  
  
Position of EMD-12074_POST1.mrc (#55) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.81587898 -0.56669392 -0.11488906 185.75318274  
0.56641476 0.82323211 -0.03825197 -63.21526421  
0.11625753 -0.03386588 0.99264157 -26.51809116  
Axis 0.00379271 -0.19987549 0.97981396  
Axis point 198.28401075 263.44535221 0.00000000  
Rotation angle (degrees) 35.32589643  
Shift along axis -12.64310605  
  
Fit map EMD-12062_POST2.mrc in map Stable_60S.mrc using 92597 points  
correlation = 0.7677, correlation about mean = 0.198, overlap = 3286  
steps = 196, shift = 28.4, angle = 38.5 degrees  
  
Position of EMD-12062_POST2.mrc (#56) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.78496248 -0.61729953 -0.05268005 193.14619740  
0.61228963 0.78593601 -0.08605812 -49.96253957  
0.09452678 0.03529694 0.99489638 -41.48085466  
Axis 0.09752866 -0.11830479 0.98817617  
Axis point 173.85171614 254.89350983 0.00000000  
Rotation angle (degrees) 38.47336712  
Shift along axis -16.24229530  
  
Fit map EMD-12064_POST3.mrc in map Stable_60S.mrc using 92531 points  
correlation = 0.7682, correlation about mean = 0.1834, overlap = 3249  
steps = 176, shift = 29.2, angle = 36.9 degrees  
  
Position of EMD-12064_POST3.mrc (#57) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.80094894 -0.59277382 -0.08426152 189.38572704  
0.58630774 0.80504344 -0.09026790 -47.24274355  
0.12134263 0.02289680 0.99234656 -44.30861819  
Axis 0.09413044 -0.17102160 0.98076046  
Axis point 173.48703920 264.02128291 0.00000000  
Rotation angle (degrees) 36.94913442  
Shift along axis -17.54964951  
  

> show #!52 models

> show #!53 models

> hide #!51 models

> undo

[Repeated 9 time(s)]

> show #!52 models

> undo

> show #!52 models

> hide #!52 models

> view orient

> show #!52 models

> select add #52

4 models selected  

> view orient

> view matrix models
> #51,-0.9873,0.11812,-0.10625,665.68,0.11491,0.069092,-0.99097,437.86,-0.10971,-0.99059,-0.081787,713.53,#52,0.79012,-0.60167,-0.11707,411.42,0.59899,0.79844,-0.060848,-59.071,0.13009,-0.022049,0.99126,139.68

> show #!53 models

> view matrix models
> #51,-0.9873,0.11812,-0.10625,453.13,0.11491,0.069092,-0.99097,436.84,-0.10971,-0.99059,-0.081787,537.83,#52,0.79012,-0.60167,-0.11707,198.87,0.59899,0.79844,-0.060848,-60.088,0.13009,-0.022049,0.99126,-36.024

> hide #!53 models

> select subtract #52

2 models selected  

> view matrix models
> #51,-0.9873,0.11812,-0.10625,624.76,0.11491,0.069092,-0.99097,446.27,-0.10971,-0.99059,-0.081787,682.08

> view matrix models
> #51,-0.82399,0.10371,-0.55702,678.25,0.54785,0.39662,-0.73658,240.07,0.14453,-0.91211,-0.38363,669.33

> view matrix models
> #51,-0.99427,0.094718,-0.049503,620.11,0.10558,0.79867,-0.59243,227.85,-0.016577,-0.59427,-0.8041,720.79

> view matrix models
> #51,-0.7825,0.49712,-0.37491,556.72,0.55502,0.82981,-0.058113,23.682,0.28222,-0.25356,-0.92524,612.13

> view matrix models
> #51,0.51579,-0.79289,-0.32447,524.35,0.70818,0.60774,-0.35936,92.107,0.48213,-0.044432,0.87497,185.61

> view matrix models
> #51,0.6317,-0.69321,-0.347,483.99,0.55935,0.71751,-0.4151,112.87,0.53673,0.068125,0.841,158.03

> view matrix models
> #51,0.6317,-0.69321,-0.347,265.71,0.55935,0.71751,-0.4151,18.041,0.53673,0.068125,0.841,-48.285

> view matrix models
> #51,0.6317,-0.69321,-0.347,327.33,0.55935,0.71751,-0.4151,54.388,0.53673,0.068125,0.841,-110.28

> view matrix models
> #51,0.6317,-0.69321,-0.347,325.15,0.55935,0.71751,-0.4151,46.772,0.53673,0.068125,0.841,-114.94

> view matrix models
> #51,0.70792,-0.70616,-0.013894,248.05,0.64331,0.65278,-0.40003,38.726,0.29156,0.27425,0.9164,-117.54

> view matrix models
> #51,0.70792,-0.70616,-0.013894,185.6,0.64331,0.65278,-0.40003,44.312,0.29156,0.27425,0.9164,-107.57

> view matrix models
> #51,0.70792,-0.70616,-0.013894,204.82,0.64331,0.65278,-0.40003,32.248,0.29156,0.27425,0.9164,-91.365

> view matrix models
> #51,0.73543,-0.67752,-0.010913,192.67,0.62793,0.68748,-0.3648,21.972,0.25466,0.26143,0.93102,-83.685

> view matrix models
> #51,0.66586,-0.74522,-0.035708,225.73,0.71223,0.64919,-0.26699,-7.1153,0.22214,0.15234,0.96304,-61.161

> view matrix models
> #51,0.62981,-0.77367,0.069075,219.19,0.75701,0.59147,-0.27767,-3.2487,0.17397,0.22717,0.95819,-64.74

> view matrix models
> #51,0.62981,-0.77367,0.069075,239.81,0.75701,0.59147,-0.27767,1.2566,0.17397,0.22717,0.95819,-91.851

> fitmap #51 inMap #52 eachModel true

Fit map EMD-12059_PRE1.mrc in map EMD-12061_PRE2.mrc using 92586 points  
correlation = 0.9066, correlation about mean = 0.5481, overlap = 379.5  
steps = 348, shift = 6.91, angle = 21.5 degrees  
  
Position of EMD-12059_PRE1.mrc (#51) relative to EMD-12061_PRE2.mrc (#52)
coordinates:  
Matrix rotation and translation  
0.99975230 0.00771994 0.02087468 -5.93953199  
-0.00772256 0.99997019 0.00004472 1.29341661  
-0.02087371 -0.00020591 0.99978210 5.35355907  
Axis -0.00563052 0.93787915 -0.34691640  
Axis point 243.32154542 0.00000000 287.58494812  
Rotation angle (degrees) 1.27532626  
Shift along axis -0.61072630  
  

> hide #!52 models

> select add #52

4 models selected  

> select add #53

6 models selected  

> select add #54

8 models selected  

> select add #55

10 models selected  

> select add #56

12 models selected  

> select add #57

14 models selected  

> view matrix models
> #51,0.79701,-0.59553,-0.10058,290.95,0.59395,0.80305,-0.048295,-232.67,0.10953,-0.021248,0.99376,211.15,#52,0.79012,-0.60167,-0.11707,297.05,0.59899,0.79844,-0.060848,-229.82,0.13009,-0.022049,0.99126,206.64,#53,0.80499,-0.58571,-0.094477,288.04,0.58159,0.81052,-0.069387,-222.94,0.11722,0.00090937,0.99311,204.4,#54,0.77723,-0.62454,-0.076605,298.11,0.6172,0.78039,-0.10025,-215.72,0.12239,0.030637,0.99201,195.49,#55,0.81588,-0.56669,-0.11489,283.93,0.56641,0.82323,-0.038252,-232.95,0.11626,-0.033866,0.99264,216.15,#56,0.78496,-0.6173,-0.05268,291.32,0.61229,0.78594,-0.086058,-219.7,0.094527,0.035297,0.9949,201.19,#57,0.80095,-0.59277,-0.084262,287.56,0.58631,0.80504,-0.090268,-216.98,0.12134,0.022897,0.99235,198.36

> show #!54 models

> hide #!54 models

> view matrix models
> #51,0.79701,-0.59553,-0.10058,189.26,0.59395,0.80305,-0.048295,-219.14,0.10953,-0.021248,0.99376,120.12,#52,0.79012,-0.60167,-0.11707,195.36,0.59899,0.79844,-0.060848,-216.29,0.13009,-0.022049,0.99126,115.62,#53,0.80499,-0.58571,-0.094477,186.36,0.58159,0.81052,-0.069387,-209.4,0.11722,0.00090937,0.99311,113.37,#54,0.77723,-0.62454,-0.076605,196.43,0.6172,0.78039,-0.10025,-202.18,0.12239,0.030637,0.99201,104.47,#55,0.81588,-0.56669,-0.11489,182.24,0.56641,0.82323,-0.038252,-219.41,0.11626,-0.033866,0.99264,125.12,#56,0.78496,-0.6173,-0.05268,189.64,0.61229,0.78594,-0.086058,-206.16,0.094527,0.035297,0.9949,110.16,#57,0.80095,-0.59277,-0.084262,185.88,0.58631,0.80504,-0.090268,-203.44,0.12134,0.022897,0.99235,107.33

> view matrix models
> #51,0.68984,0.70829,-0.14982,-36.931,0.42791,-0.56583,-0.70479,212.72,-0.58397,0.42208,-0.69342,501.7,#52,0.69201,0.70294,-0.16433,-32.85,0.40873,-0.56915,-0.71345,219.7,-0.59504,0.42655,-0.68117,501.26,#53,0.67812,0.7151,-0.16968,-27.156,0.43102,-0.57394,-0.69629,213.25,-0.5953,0.39903,-0.69741,508.97,#54,0.70879,0.67722,-0.19745,-17.805,0.40098,-0.61708,-0.67707,225.31,-0.58037,0.40073,-0.70893,509.42,#55,0.6648,0.73343,-0.14186,-38.649,0.4423,-0.5395,-0.71646,204.3,-0.602,0.41355,-0.68306,502.42,#56,0.70752,0.68331,-0.18029,-23.205,0.42547,-0.61557,-0.66337,217.23,-0.56427,0.39264,-0.72625,509.38,#57,0.68182,0.70675,-0.18873,-20.812,0.42455,-0.59242,-0.68468,215.78,-0.59571,0.38671,-0.70398,514.04

> view matrix models
> #51,-0.83705,0.2801,0.47,257.82,-0.44785,0.1427,-0.88265,293.95,-0.3143,-0.94931,0.0059995,582.84,#52,-0.82487,0.28658,0.48731,249.94,-0.46506,0.14611,-0.87314,295.67,-0.32142,-0.94685,0.012754,582.09,#53,-0.8376,0.27743,0.4706,255.02,-0.45647,0.11783,-0.8819,300.19,-0.30012,-0.95349,0.027946,572.75,#54,-0.82172,0.33151,0.46355,240.73,-0.45534,0.10719,-0.88384,304.12,-0.34269,-0.93734,0.062871,569.12,#55,-0.84307,0.24407,0.47923,265.94,-0.45777,0.14204,-0.87765,291.81,-0.28228,-0.9593,-0.0080212,580.86,#56,-0.83738,0.32522,0.43935,249.99,-0.43165,0.099702,-0.89652,301.66,-0.33537,-0.94037,0.056891,570.72,#57,-0.8339,0.29339,0.46747,251.45,-0.45939,0.10049,-0.88253,305.32,-0.3059,-0.9507,0.050985,566.98

> view matrix models
> #51,-0.97793,-0.19105,0.084585,454.74,-0.077138,-0.046099,-0.99595,273.37,0.19417,-0.9805,0.030344,475.29,#52,-0.9774,-0.18349,0.10502,448.61,-0.098265,-0.045546,-0.99412,278.17,0.18719,-0.98197,0.026486,477.53,#53,-0.97433,-0.2036,0.096055,449.64,-0.083842,-0.067804,-0.99417,279.57,0.20893,-0.9767,0.048994,466.11,#54,-0.982,-0.15575,0.10682,437.68,-0.092078,-0.098971,-0.99082,288.86,0.16489,-0.98283,0.082849,468.01,#55,-0.97045,-0.22515,0.086836,459.58,-0.081639,-0.03231,-0.99614,267.93,0.22708,-0.97379,0.012974,470.67,#56,-0.98306,-0.16481,0.080153,445.09,-0.063608,-0.10333,-0.99261,282.88,0.17187,-0.9809,0.091098,466.11,#57,-0.97517,-0.19521,0.1046,445.67,-0.088389,-0.090007,-0.99201,285.36,0.20307,-0.97662,0.070517,461.3

> view matrix models
> #51,-0.98951,-0.13677,0.046522,453.69,-0.044931,-0.014697,-0.99888,260.79,0.1373,-0.99049,0.0083975,493.65,#52,-0.98935,-0.12912,0.067194,447.62,-0.065885,-0.014394,-0.99772,265.76,0.1298,-0.99152,0.0057337,495.67,#53,-0.987,-0.1503,0.056975,449.35,-0.052127,-0.036,-0.99799,267.4,0.15205,-0.98799,0.027698,484.37,#54,-0.99246,-0.10334,0.065916,437.65,-0.05898,-0.068791,-0.99589,277.09,0.10745,-0.99226,0.062177,485.84,#55,-0.98407,-0.17067,0.049745,458.58,-0.05052,0.00019957,-0.99872,255.28,0.17044,-0.98533,-0.0088188,489.17,#56,-0.99288,-0.11265,0.038781,444.93,-0.030671,-0.072852,-0.99687,270.88,0.11512,-0.99096,0.068878,484.2,#57,-0.98767,-0.14274,0.06436,445.88,-0.056493,-0.058499,-0.99669,273.45,0.14603,-0.98803,0.049714,479.5

> view matrix models
> #51,-0.97091,-0.2123,-0.11078,494.57,0.13165,-0.086774,-0.98749,235.03,0.20003,-0.97334,0.1122,457.06,#52,-0.97462,-0.2048,-0.090447,489.54,0.11033,-0.087832,-0.99001,241.09,0.19481,-0.97486,0.1082,458.9,#53,-0.96844,-0.22878,-0.098881,490.63,0.12558,-0.10523,-0.98649,241.34,0.21528,-0.96777,0.13063,447.4,#54,-0.97829,-0.18803,-0.087125,480.75,0.11548,-0.14554,-0.98259,252.92,0.17207,-0.97132,0.1641,448.53,#55,-0.96391,-0.24294,-0.10889,498.18,0.12844,-0.066083,-0.98951,228.39,0.2332,-0.96779,0.094901,452.9,#56,-0.97366,-0.19773,-0.11349,486.82,0.14408,-0.14788,-0.97846,245.46,0.17669,-0.96904,0.17247,447.12,#57,-0.97024,-0.22488,-0.08973,487.8,0.12083,-0.12856,-0.98431,247.38,0.20982,-0.96587,0.15191,442.13

[deleted to fit within ticket limits]


> open 6tnu

6tnu title:  
Yeast 80S ribosome in complex with eIF5A and decoding A-site and P-site tRNAs.
[more info...]  
  
Chain information for 6tnu #19  
---  
Chain | Description | UniProt  
2 | 18S rRNA |   
A | 40S ribosomal protein S3 | RS3_YEAST 4-225  
AA | 60S ribosomal protein L8-A | RL8A_YEAST 24-256  
AB | 60S ribosomal protein L23-A | RL23A_YEAST 2-137  
AC | 60S ribosomal protein L36-A | RL36A_YEAST 2-100  
AD | 60S ribosomal protein L9-A | RL9A_YEAST 1-191  
AE | 60S ribosomal protein L24-A | RL24A_YEAST 1-126  
AF | 60S ribosomal protein L37-A | RL37A_YEAST 2-82  
AG | 60S ribosomal protein L11-B | RL11B_YEAST 6-174  
AH | 60S ribosomal protein L25 | RL25_YEAST 22-142  
AI | 60S ribosomal protein L38 | RL38_YEAST 2-78  
AJ | 60S ribosomal protein L13-A | RL13A_YEAST 2-194  
AK | 60S ribosomal protein L26-A | RL26A_YEAST 2-126  
AL | 60S ribosomal protein L39 | RL39_YEAST 2-51  
AM | 60S ribosomal protein L14-A | RL14A_YEAST 3-138  
AN | 60S ribosomal protein L27-A | RL27A_YEAST 2-136  
AO | Ubiquitin-60S ribosomal protein L40 | RL40A_YEAST 77-128  
AP | 60S ribosomal protein L42-A | RL44A_YEAST 2-104  
AQ | 60S ribosomal protein L15-A | RL15A_YEAST 2-204  
AR | 60S ribosomal protein L28 | RL28_YEAST 2-149  
AS | 60S ribosomal protein L41-A |   
AT | 60S ribosomal protein L43-A | RL43A_YEAST 2-92  
AU | 60S ribosomal protein L16-A | RL16A_YEAST 3-199  
AV | 60S ribosomal protein L29 | RL29_YEAST 2-59  
AW | 60S ribosomal protein L2-A | RL2A_YEAST 2-252  
AX | 60S ribosomal protein L17-A | RL17A_YEAST 2-184  
AY | 60S ribosomal protein L30 | RL30_YEAST 9-104  
B | Rps5p | A0A1L4AA68_YEASX 20-225  
BA | 60S ribosomal protein L3 | RL3_YEAST 2-387  
BB | 60S ribosomal protein L18-A | RL18A_YEAST 2-186  
BC | 60S ribosomal protein L31-A | RL31A_YEAST 4-112  
BD | 60S ribosomal protein L10 | RL10_YEAST 2-219  
BE | 60S ribosomal protein L4-A | RL4A_YEAST 2-362  
BF | 60S ribosomal protein L19-A | RL19A_YEAST 2-189  
BG | 60S ribosomal protein L32 | RL32_YEAST 2-128  
BH | 60S ribosomal protein L20-A | RL20A_YEAST 2-172  
BI | 60S ribosomal protein L5 | RL5_YEAST 4-297  
BJ | 60S ribosomal protein L21-A | RL21A_YEAST 2-160  
BK | 60S ribosomal protein L33-A | RL33A_YEAST 2-107  
BL | 60S ribosomal protein L22-A | RL22A_YEAST 9-108  
BM | 60S ribosomal protein L6-B | RL6B_YEAST 2-176  
BN | 60S ribosomal protein L34-A | RL34A_YEAST 2-113  
BO | 60S ribosomal protein L7-A | RL7A_YEAST 23-244  
BP | 60S ribosomal protein L35-A | RL35A_YEAST 2-120  
BQ | 25S rRNA |   
BR | 5S rRNA |   
BS | 5.8S rRNA |   
BT | 60S ribosomal protein L1 |   
C | 40S ribosomal protein S10-A | RS10A_YEAST 1-92  
D | 40S ribosomal protein S12 | RS12_YEAST 23-143  
E | 40S ribosomal protein S15 | RS15_YEAST 13-129  
F | 40S ribosomal protein S16-A | RS16A_YEAST 3-143  
G | 40S ribosomal protein S17-B | RS17B_YEAST 2-126  
H | 40S ribosomal protein S18-A | RS18A_YEAST 2-146  
I | 40S ribosomal protein S19-A | RS19A_YEAST 2-144  
J | 40S ribosomal protein S20 | RS20_YEAST 20-119  
K | 40S ribosomal protein S25-A | RS25A_YEAST 24-105  
L | 40S ribosomal protein S28-A | RS28A_YEAST 5-67  
M | 40S ribosomal protein S29-A | RS29A_YEAST 4-56  
N | Ubiquitin-40S ribosomal protein S31 | RS31_YEAST 80-152  
O | Guanine nucleotide-binding protein subunit beta-like protein | GBLP_YEAST 5-316  
P | 40S ribosomal protein S0-A | RSSA1_YEAS1 2-207  
Q | 40S ribosomal protein S1-A | RS3A1_YEAS1 2-233  
R | 40S ribosomal protein S2 | RS2_YEAST 34-249  
S | 40S ribosomal protein S4-A | RS4A_YEAST 2-259  
T | 40S ribosomal protein S6-A | RS6A_YEAST 1-228  
U | 40S ribosomal protein S7-A | RS7A_YEAST 4-187  
V | 40S ribosomal protein S8 | A0A0J9X221_LACKL 2-199  
W | 40S ribosomal protein S9-A | RS9A_YEAST 2-185  
X | 40S ribosomal protein S11-A | RS11A_YEAST 4-145  
Y | 40S ribosomal protein S13 | RS13_YEAST 2-151  
Z | 40S ribosomal protein S14-B | RS14B_YEAST 11-137  
a | 40S ribosomal protein S21-A | RS21A_YEAST 1-87  
b | 40S ribosomal protein S22-A | RS22A_YEAST 2-130  
c | 40S ribosomal protein S23-A | RS23A_YEAST 2-145  
d | 40S ribosomal protein S24-A | RS24A_YEAST 2-135  
e | 40S ribosomal protein S26-B | RS26B_YEAST 2-98  
eI | Eukaryotic translation initiation factor 5A-1 | IF5A1_YEAST 4-157  
f | 40S ribosomal protein S27-A | RS27A_YEAST 2-82  
g | 40S ribosomal protein S30-A | RS30A_YEAST 2-61  
l | mRNA |   
m | A-site tRNA |   
n | P-site tRNA |   
  
Non-standard residues in 6tnu #19  
---  
3HE —
4-{(2R)-2-[(1S,3S,5S)-3,5-dimethyl-2-oxocyclohexyl]-2-hydroxyethyl}piperidine-2,6-dione  
SPD — spermidine (N-(2-amino-propyl)-1,4-diaminobutane; Pa(34))  
ZN — zinc ion  
  
1555 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  

> select #19/2:1362@OP2

1 atom, 1 residue, 1 model selected  

> view matrix models #19,1,0,0,-221.3,0,1,0,194.79,0,0,1,143.1

> view matrix models
> #19,0.26444,-0.84282,-0.46875,307.63,-0.43264,-0.53808,0.72339,536.83,-0.86191,0.011508,-0.50693,733.24

> view matrix models
> #19,0.00473,-0.38475,0.92301,-101.5,0.74793,0.61403,0.25212,49.733,-0.66376,0.68916,0.29067,300.09

> view matrix models
> #19,0.46851,0.1293,0.87394,-343.68,0.33944,0.88695,-0.3132,219.63,-0.81564,0.44339,0.37166,384.03

> open 6y0u

Summary of feedback from opening 6y0u fetched from pdb  
---  
notes | Fetching compressed mmCIF 6y0u from http://files.rcsb.org/download/6y0u.cif  
Fetching CCD CA from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/A/CA/CA.cif  
Fetching CCD DLY from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/Y/DLY/DLY.cif  
Fetching CCD O65 from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/5/O65/O65.cif  
Fetching CCD ZDC from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/C/ZDC/ZDC.cif  
  
6y0u title:  
Fucosylated Bicyclic peptide bp71 bound to the fucose binding lectin LecB PA-
IIL from Pseudomonas aeruginosa at 1.5 Angstrom resolution [more info...]  
  
Chain information for 6y0u #20  
---  
Chain | Description | UniProt  
A B C D | Fucose-binding lectin | A0A069Q9V4_PSEAI 0-114  
E F H | bp71 |   
  
Non-standard residues in 6y0u #20  
---  
CA — calcium ion  
NH2 — amino group  
O65 — 3,5-bis(hydroxymethyl)-4-methyl-benzaldehyde  
ZDC — 3,7-anhydro-2,8-dideoxy-L-glycero-D-gluco-octonic acid  
  

> hide #!19 models

> hide #!20 models

> show #!20 models

> hide #!3 models

> hide #!20 models

> show #!20 models

> hide #!20 models

> show #!20 models

> show #!20 target m

> view #20 clip false

> close #20

> show #!2 models

> view #2 clip false

> hide #!2 models

> close #19

> open 8y0u

8y0u title:  
dormant ribosome with STM1 [more info...]  
  
Chain information for 8y0u #19  
---  
Chain | Description | UniProt  
5 | Eukaryotic translation initiation factor 5A-1 | IF5A1_YEAST 1-157  
C1 | 25S rRNA |   
C2 | 18S rRNA |   
C3 | 5.8S rRNA |   
C4 | 5S rRNA |   
LA | Large ribosomal subunit protein uL2A | RL2A_YEAST 1-254  
LB | Large ribosomal subunit protein uL3 | RL3_YEAST 1-387  
LC | Large ribosomal subunit protein uL4A | RL4A_YEAST 1-362  
LD | Large ribosomal subunit protein uL18 | RL5_YEAST 1-297  
LE | Large ribosomal subunit protein eL6B | RL6B_YEAST 1-176  
LF | Large ribosomal subunit protein uL30A | RL7A_YEAST 1-244  
LG | Large ribosomal subunit protein eL8A | RL8A_YEAST 1-256  
LH | Large ribosomal subunit protein uL6A | RL9A_YEAST 1-191  
LI | Large ribosomal subunit protein uL16 | RL10_YEAST 1-221  
LJ | Large ribosomal subunit protein uL5B | RL11B_YEAST 1-174  
LL | Large ribosomal subunit protein eL13A | RL13A_YEAST 1-199  
LM | Large ribosomal subunit protein eL14A | RL14A_YEAST 1-138  
LN | Large ribosomal subunit protein eL15A | RL15A_YEAST 1-204  
LO | Large ribosomal subunit protein uL13A | RL16A_YEAST 1-199  
LP | Large ribosomal subunit protein uL22A | RL17A_YEAST 1-184  
LQ | Large ribosomal subunit protein eL18A | RL18A_YEAST 1-186  
LR | Large ribosomal subunit protein eL19A | RL19A_YEAST 1-189  
LS | Large ribosomal subunit protein eL20A | RL20A_YEAST 1-172  
LT | Large ribosomal subunit protein eL21A | RL21A_YEAST 1-160  
LU | Large ribosomal subunit protein eL22A | RL22A_YEAST 1-121  
LV | Large ribosomal subunit protein uL14A | RL23A_YEAST 1-137  
LW | Large ribosomal subunit protein eL24A | RL24A_YEAST 1-155  
LX | Large ribosomal subunit protein uL23 | RL25_YEAST 1-142  
LY | Large ribosomal subunit protein uL24A | RL26A_YEAST 1-127  
LZ | Large ribosomal subunit protein eL27A | RL27A_YEAST 1-136  
La | Large ribosomal subunit protein uL15 | RL28_YEAST 1-149  
Lb | Large ribosomal subunit protein eL29 | RL29_YEAST 1-59  
Lc | Large ribosomal subunit protein eL30 | RL30_YEAST 1-105  
Ld | Large ribosomal subunit protein eL31A | RL31A_YEAST 1-113  
Le | Large ribosomal subunit protein eL32 | RL32_YEAST 1-130  
Lf | Large ribosomal subunit protein eL33A | RL33A_YEAST 1-107  
Lg | Large ribosomal subunit protein eL34A | RL34A_YEAST 1-121  
Lh | Large ribosomal subunit protein uL29A | RL35A_YEAST 1-120  
Li | Large ribosomal subunit protein eL36A | RL36A_YEAST 1-100  
Lj | Large ribosomal subunit protein eL37A | RL37A_YEAST 1-88  
Lk | Large ribosomal subunit protein eL38 | RL38_YEAST 1-78  
Ll | Large ribosomal subunit protein eL39 | RL39_YEAST 2-51  
Lm | Ubiquitin-ribosomal protein eL40A fusion protein | RL40A_YEAST 1-128  
Ln | Large ribosomal subunit protein eL41A | RL41A_YEAST 1-25  
Lo | Large ribosomal subunit protein eL42A | RL44A_YEAST 1-106  
Lp | Large ribosomal subunit protein eL43A | RL43A_YEAST 1-92  
P0 | Large ribosomal subunit protein uL10 | RLA0_YEAST 1-312  
P2 | Large ribosomal subunit protein uL11A | RL12A_YEAST 1-165  
SA | Small ribosomal subunit protein uS2A | RSSA1_YEAST 1-252  
SB | 40S ribosomal protein S1-A | RS3A1_YEAST 1-255  
SC | 40S ribosomal protein S2 | RS2_YEAST 1-254  
SE | 40S ribosomal protein S4-A | RS4A_YEAST 1-261  
SG | 40S ribosomal protein S6-A | RS6A_YEAST 1-236  
SH | 40S ribosomal protein S7-A | RS7A_YEAST 1-190  
SI | 40S ribosomal protein S8-A | RS8A_YEAST 1-200  
SJ | 40S ribosomal protein S9-A | RS9A_YEAST 1-197  
SK | Small ribosomal subunit protein eS10A | RS10A_YEAST 1-105  
SL | Small ribosomal subunit protein uS17A | RS11A_YEAST 1-156  
SM | Small ribosomal subunit protein eS12 | RS12_YEAST 1-143  
SN | 40S ribosomal protein S13 | RS13_YEAST 1-151  
SO | Small ribosomal subunit protein uS11B | RS14B_YEAST 0-137  
SP | Small ribosomal subunit protein uS19 | RS15_YEAST 1-142  
SQ | Small ribosomal subunit protein uS9A | RS16A_YEAST 1-143  
ST | Small ribosomal subunit protein eS19A | RS19A_YEAST 1-144  
SU | Small ribosomal subunit protein uS10 | RS20_YEAST 1-121  
SV | Small ribosomal subunit protein eS21A | RS21A_YEAST 1-87  
SW | 40S ribosomal protein S22-A | RS22A_YEAST 1-130  
SX | 40S ribosomal protein S23-A | RS23A_YEAST 1-145  
SY | 40S ribosomal protein S24-A | RS24A_YEAST 1-135  
SZ | Small ribosomal subunit protein eS25A | RS25A_YEAST 1-108  
Sa | Small ribosomal subunit protein eS26B | RS26B_YEAST 1-119  
Sb | 40S ribosomal protein S27-A | RS27A_YEAST 1-82  
Sc | Small ribosomal subunit protein eS28A | RS28A_YEAST 1-67  
Sd | Small ribosomal subunit protein uS14A | RS29A_YEAST 1-56  
Se | 40S ribosomal protein S30-A | RS30A_YEAST 1-63  
Sf | Ubiquitin-ribosomal protein eS31 fusion protein | RS31_YEAST 1-152  
s | Suppressor protein STM1 | STM1_YEAST 1-269  
  
Non-standard residues in 8y0u #19  
---  
MG — magnesium ion  
ZN — zinc ion  
  
1555 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  

> select #19/LD:220@CB

1 atom, 1 residue, 1 model selected  

> view matrix models #19,1,0,0,-25.95,0,1,0,-120.45,0,0,1,6.1048

> view matrix models
> #19,0.56606,-0.10375,-0.81781,301.88,-0.74699,-0.48418,-0.45561,520.07,-0.34869,0.8688,-0.35157,213.97

> view matrix models
> #19,0.85301,0.19024,-0.48599,82.735,-0.21215,-0.7244,-0.65593,493.57,-0.47683,0.66261,-0.57756,347.24

> view matrix models
> #19,0.85301,0.19024,-0.48599,71.494,-0.21215,-0.7244,-0.65593,403.62,-0.47683,0.66261,-0.57756,393.35

> select add #19

196269 atoms, 210786 bonds, 5371 pseudobonds, 16186 residues, 4 models
selected  

> select clear

> select add #19

196269 atoms, 210786 bonds, 5371 pseudobonds, 16186 residues, 4 models
selected  

> hide sel atoms

> show sel cartoons

> hide #!53 models

> show #!50 models

> view matrix models
> #19,0.85301,0.19024,-0.48599,118.68,-0.21215,-0.7244,-0.65593,629.5,-0.47683,0.66261,-0.57756,374.33

> view matrix models
> #19,0.61593,-0.028922,-0.78727,301.45,-0.55994,-0.71903,-0.41166,655.05,-0.55417,0.69437,-0.45907,357.33

> view matrix models
> #19,0.62051,0.067521,-0.78129,276.21,-0.67642,-0.45799,-0.5768,662.31,-0.39677,0.88639,-0.23852,220.09

> view matrix models
> #19,0.62051,0.067521,-0.78129,273.41,-0.67642,-0.45799,-0.5768,663.53,-0.39677,0.88639,-0.23852,204.39

> fitmap #19 inMap #50

Fit molecule 8y0u (#19) to map Stable_60S.mrc (#50) using 196269 atoms  
average map value = 0.5701, steps = 116  
shifted from previous position = 14.3  
rotated from previous position = 17.6 degrees  
atoms outside contour = 82391, contour level = 0.6  
  
Position of 8y0u (#19) relative to Stable_60S.mrc (#50) coordinates:  
Matrix rotation and translation  
0.47892449 0.28157152 -0.83147387 260.86164343  
-0.59542167 -0.59179828 -0.54336712 662.20184423  
-0.64506151 0.75530938 -0.11577290 258.01173204  
Axis 0.82293219 -0.11812390 -0.55572417  
Axis point 0.00000000 274.34385547 413.50076861  
Rotation angle (degrees) 127.90277011  
Shift along axis -6.93377515  
  

> show #!3 models

> hide #!3 models

> show #!3 models

> hide #!3 models

> rename #19 Stm1

> select #19/s:130

5 atoms, 4 bonds, 1 residue, 1 model selected  

> select up

75 atoms, 74 bonds, 15 residues, 1 model selected  

> select up

104 atoms, 103 bonds, 21 residues, 1 model selected  

> select up

137 atoms, 135 bonds, 26 residues, 1 model selected  

> select up

261 atoms, 261 bonds, 42 residues, 1 model selected  

> select up

196269 atoms, 210786 bonds, 16186 residues, 1 model selected  

> select down

261 atoms, 261 bonds, 42 residues, 1 model selected  

> select ~sel & ##selected

196008 atoms, 210525 bonds, 5370 pseudobonds, 16144 residues, 4 models
selected  

> hide sel cartoons

> select clear

> show #!61 models

> hide #!61 models

> hide #!19 models

> hide #!50 models

> show #!10 models

> show #!11 models

> show #!12 models

> show #!13 models

> show #!14 models

> show #!15 models

> show #!16 models

> show #!17 models

> hide #!17 models

> hide #!16 models

> hide #!15 models

> hide #!14 models

> show #!14 models

> hide #!13 models

> hide #!14 models

> hide #!12 models

> hide #!11 models

> hide #!10 models

> color #19 #d783ffff

> show #!19 models

> color #19 #9437ffff

> show #!3 models

> hide #!3 models

> show #!61 models

> show #!52 models

> hide #!52 models

> show #!53 models

> hide #!61 models

> hide #!19 models

> show #!19 models

> show #!61 models

> hide #!53 models

> show #!53 models

Drag select of 17577 residues, 29 pseudobonds  

> select subtract #53/m

208981 atoms, 29 pseudobonds, 17501 residues, 5 models selected  

> select subtract #61/ASIT

207345 atoms, 29 pseudobonds, 17425 residues, 5 models selected  

> select subtract #61/PSIT

205701 atoms, 29 pseudobonds, 17348 residues, 5 models selected  

> show #!3 models

> color zone #3 near sel distance 60

> volume splitbyzone #3

Opened Hibernating_filtsharp.mrc 0 as #20.1, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 1 as #20.2, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 2 as #20.3, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 3 as #20.4, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 4 as #20.5, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  
Opened Hibernating_filtsharp.mrc 5 as #20.6, grid size 270,270,270, pixel
2.59, shown at level 0.00507, step 1, values float32  

> hide #!19 models

> rename #19 id #60

> hide #!61 models

> hide #!53 models

> hide #!20.1 models

> color #20.2 #d6d6d61a models

> color #20.3 #a9a9a93f models

> hide #!20 models

> show #!4 models

> show #!3 models

> hide #!3 models

> show #!61 models

> hide #!4 models

Drag select of 17095 residues, 28 pseudobonds  

> show #!4 models

> color zone #4 near sel distance 60

> hide #!4 models

> show #!4 models

> show #!53 models

> hide #!53 models

> hide #!4 models

> show #!53 models

> hide #!53 models

> show #!52 models

> select add #61

207066 atoms, 221714 bonds, 5069 pseudobonds, 17603 residues, 4 models
selected  

> select subtract #61

Nothing selected  

> hide #!61 models

> show #!53 models

> hide #!53 models

> select add #52

220934 atoms, 236952 bonds, 5887 pseudobonds, 18186 residues, 4 models
selected  

> show sel atoms

> hide sel atoms

> select clear

> show #!58 models

> hide #!58 models

> show #!4 models

> hide #!52 models

> show #!61 models

> hide #!4 models

Drag select of 17095 residues, 28 pseudobonds  

> show #!60 models

> hide #!61 models

> hide #!60 models

> show #!58 models

Drag select of 148 residues  

> select clear

Drag select of 351 residues  

> select (sel & #58/2S)

1332 atoms, 1490 bonds, 13 pseudobonds, 62 residues, 2 models selected  

> select add #58/L1

2941 atoms, 3124 bonds, 13 pseudobonds, 266 residues, 2 models selected  

> hide #!58 models

> show #!61 models

Drag select of 17095 residues, 28 pseudobonds  

> show #!58 models

> hide #!58 models

> show #!60 models

> hide #!61 models

Drag select of 42 residues, 1 pseudobonds  

> show #!4 models

> color zone #4 near sel distance 60

> show #!3 models

> hide #!4 models

> show #!4 models

> hide #!3 models

> show #!3 models

> hide #!4 models

> show #!4 models

> hide #!3 models

> show #!3 models

> hide #!4 models

> show #!4 models

> hide #!3 models

> show #!3 models

> hide #!4 models

> show #!61 models

> hide #!3 models

> show #!59 models

> hide #!61 models

> hide #!60 models

> show #!61 models

> select clear

Drag select of 121 residues  

> select clear

> hide #!61 models

> show #!61 models

> hide #!59 models

> show #!59 models

> hide #!59 models

> show #!59 models

> hide #!59 models

> show #!59 models

> hide #!59 models

> show #!59 models

> hide #!59 models

> show #!59 models

> hide #!59 models

> show #!59 models

> hide #!61 models

> hide #!59 models

> show #!4 models

> hide #!4 models

> show #!2 models

> show #!58 models

> hide #!2 models

> show #!2 models

> hide #!2 models

> show #!2 models

> show #!61 models

> hide #!61 models

> hide #!2 models

> hide #!58 models

> show #!59 models

> show #!12 models

> hide #!59 models

> show #!59 models

> hide #!12 models

> show #!4 models

> hide #!4 models

> hide #!59 models

> show #!61 models

Drag select of 17095 residues, 28 pseudobonds  
[Repeated 1 time(s)]

> show #!58 models

> hide #!61 models

Drag select of 752 residues  

> select (sel & #58/2S)

3065 atoms, 3416 bonds, 65 pseudobonds, 144 residues, 2 models selected  

> select clear

Drag select of 838 residues  

> select (sel & #58/2S)

1096 atoms, 1226 bonds, 12 pseudobonds, 51 residues, 2 models selected  
Drag select of 1057 residues  

> select (sel & #58/2S)

1118 atoms, 1252 bonds, 12 pseudobonds, 52 residues, 2 models selected  

> select add #58/L1

2727 atoms, 2886 bonds, 12 pseudobonds, 256 residues, 2 models selected  

> hide #!58 models

> show #!61 models

Drag select of 17095 residues, 28 pseudobonds  

> show #!4 models

> color zone #4 near sel distance 60

> volume splitbyzone #4

Opened Int_Post_filtsharp.mrc 0 as #19.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 1 as #19.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 2 as #19.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 3 as #19.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 4 as #19.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  
Opened Int_Post_filtsharp.mrc 5 as #19.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00705, step 1, values float32  

> hide #!19.1 models

> hide #!61 models

> color #19.2 #d6d6d619 models

> color #19.3 #a9a9a940 models

> hide #!19 models

> show #!5 models

> show #!58 models

> hide #!5 models

Drag select of 17082 residues, 11 pseudobonds  

> show #!5 models

> hide #!58 models

> show #!58 models

> select subtract #58/ET

207492 atoms, 11 pseudobonds, 17005 residues, 2 models selected  

> color zone #5 near sel distance 60

> show #!4 models

> hide #!4 models

> select #58/ET:45

22 atoms, 24 bonds, 1 residue, 1 model selected  

> select up

1644 atoms, 1836 bonds, 77 residues, 1 model selected  

> color sel #d6d6d6ff

> hide #!5 models

Drag select of 17082 residues, 11 pseudobonds  

> show #!5 models

> color zone #5 near sel distance 60

> volume splitbyzone #5

Opened Post_filtsharp.mrc 0 as #21.1, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 1 as #21.2, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 2 as #21.3, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  
Opened Post_filtsharp.mrc 3 as #21.4, grid size 270,270,270, pixel 2.59, shown
at level 0.00678, step 1, values float32  

> hide #!21.1 models

> hide #!58 models

> color #21.2 #d6d6d619 models

> color #21.3 #a9a9a93f models

> hide #!21 models

> show #!6 models

> show #!5 models

> hide #!6 models

> show #!6 models

> hide #!5 models

> show #!59 models

> open
> /Users/campbell/Desktop/workspaces/hd_tn298-Comb_2025/BfactorScreener/20260216_MMS_Rotated_Bfactorscreening/LocRes_Bfac_-100_locres.mrc

Opened LocRes_Bfac_-100_locres.mrc as #22, grid size 270,270,270, pixel 2.59,
shown at level 50, step 2, values float32  

> open
> /Users/campbell/Desktop/workspaces/hd_tn298-Comb_2025/BfactorScreener/20260216_MMS_Rotated_Bfactorscreening/LocRes_Bfac_-200_locres.mrc

Opened LocRes_Bfac_-200_locres.mrc as #23, grid size 270,270,270, pixel 2.59,
shown at level 50, step 2, values float32  

> hide #!6 models

> hide #!59 models

> hide #!23 models

> show #!23 models

> volume #23 level 32.75

> volume #23 level 23.19

> volume #23 step 1

> open
> /Users/campbell/Desktop/workspaces/hd_tn298-Comb_2025/BfactorScreener/20260216_MMS_Rotated_Bfactorscreening/LocRes_Bfac_-200_locres_filtered.mrc

Opened LocRes_Bfac_-200_locres_filtered.mrc as #24, grid size 270,270,270,
pixel 2.59, shown at level 0.0133, step 2, values float32  

> hide #!23 models

> hide #!22 models

> close #22-23

> open
> /Users/campbell/Desktop/workspaces/hd_tn298-Comb_2025/BfactorScreener/20260216_MMS_Rotated_Bfactorscreening/LocRes_Bfac_-100_locres_filtered.mrc

Opened LocRes_Bfac_-100_locres_filtered.mrc as #22, grid size 270,270,270,
pixel 2.59, shown at level 0.0133, step 2, values float32  

> hide #!22 models

> hide #!24 models

> show #!22 models

> show #!24 models

> hide #!24 models

> volume #24 step 1

> volume #22 step 1

> show #!24 models

> hide #!22 models

> show #!22 models

> hide #!24 models

> show #!24 models

> hide #!22 models

> show #!22 models

> tile

2 models tiled  

> show #!6 models

> close #22,24

> show #!4 models

> hide #!4 models

> show #!5 models

> hide #!5 models

> hide #!6 models

> show #!6 models

> show #!7 models

> hide #!7 models

> hide #!6 models

> show #!6 models

> show #!50 models

> show #!1 models

> show #!2 models

> show #!3 models

> show #!4 models

> hide #!4 models

> hide #!3 models

> hide #!2 models

> hide #!1 models

> fitmap #6 inMap #50

Fit map Rotated_filtlocal.mrc in map Stable_60S.mrc using 196492 points  
correlation = 0.7434, correlation about mean = 0.1434, overlap = 738.7  
steps = 236, shift = 29.4, angle = 33.5 degrees  
  
Position of Rotated_filtlocal.mrc (#6) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.40558707 0.79658660 0.44827327 -320.07103706  
-0.76555288 0.56399683 -0.30957449 424.14795406  
-0.49942759 -0.21761748 0.83857899 181.34646724  
Axis 0.05026495 0.51802614 -0.85388662  
Axis point 203.82100972 556.97259991 0.00000000  
Rotation angle (degrees) 66.16642127  
Shift along axis 48.78205109  
  

> select #6

2 models selected  

> view matrix models
> #6,0.40559,0.79659,0.44827,-349.57,-0.76555,0.564,-0.30957,358.75,-0.49943,-0.21762,0.83858,190.05

> view matrix models
> #6,0.94014,-0.23767,-0.24422,65.746,0.20526,0.967,-0.15092,-182.68,0.27203,0.091758,0.9579,-234.03

> view matrix models
> #6,0.92573,-0.35085,-0.14118,72.909,0.35425,0.93515,-0.0010605,-278.53,0.1324,-0.049033,0.98998,-147.3

> view matrix models
> #6,0.92573,-0.35085,-0.14118,122.49,0.35425,0.93515,-0.0010605,-205.56,0.1324,-0.049033,0.98998,-132.55

> view matrix models
> #6,0.92573,-0.35085,-0.14118,91.802,0.35425,0.93515,-0.0010605,-195.22,0.1324,-0.049033,0.98998,-109.22

> view matrix models
> #6,0.98533,-0.087152,-0.14673,-18.377,0.10608,0.98627,0.12653,-170.38,0.13369,-0.14024,0.98105,-75.003

> fitmap #6 inMap #50

Fit map Rotated_filtlocal.mrc in map Stable_60S.mrc using 196492 points  
correlation = 0.7944, correlation about mean = 0.3224, overlap = 931.5  
steps = 96, shift = 13.8, angle = 12.5 degrees  
  
Position of Rotated_filtlocal.mrc (#6) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.99999303 -0.00001062 -0.00373347 -93.78127722  
-0.00000839 0.99998703 -0.00509241 -90.26036119  
0.00373347 0.00509240 0.99998006 -96.84468934  
Axis 0.80647742 -0.59126487 0.00017675  
Axis point 0.00000000 18937.00948113 -20359.79935284  
Rotation angle (degrees) 0.36178966  
Shift along axis -22.28181842  
  

> select clear

> hide #!50 models

> show #!59 models

> hide #!6 models

> show #!51 models

Drag select of 17213 residues, 12 pseudobonds  

> color zone #6 near sel distance 60

> hide #!59 models

> hide #!51 models

> show #!6 models

> volume splitbyzone #6

Opened Rotated_filtlocal.mrc 0 as #22.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 1 as #22.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 2 as #22.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 3 as #22.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  
Opened Rotated_filtlocal.mrc 4 as #22.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00572, step 1, values float32  

> hide #!22.1 models

> color #22.2 #d6d6d614 models

> color #22.2 #d6d6d61b models

> color #22.3 #a9a9a93f models

> hide #!22 models

> show #!7 models

> hide #!7 models

> show #!51 models

> show #!59 models

> hide #!51 models

> hide #!59 models

> show #!51 models

> show #!59 models

> hide #!51 models

> hide #!59 models

> show #!51 models

> show #!59 models

> hide #!51 models

> hide #!59 models

> show #!59 models

> show #!51 models

> hide #!59 models

> hide #!51 models

> show #!7 models

> hide #!7 models

> show #!51 models

> show #!59 models

> hide #!51 models

> hide #!59 models

> show #!61 models

> show #!51 models

Drag select of 5116 residues, 14 pseudobonds  
Drag select of 5449 residues, 14 pseudobonds  

> hide #!61 models

> show #!61 models

Drag select of 2400 residues, 8 pseudobonds  
Drag select of 3586 residues, 10 pseudobonds  
Drag select of 4530 residues, 10 pseudobonds  

> select (sel & #61/eEF2)

6066 atoms, 6176 bonds, 781 residues, 1 model selected  

> hide #!61 models

Drag select of 149 residues  

> hide #!51 models

> show #!59 models

Drag select of 17064 residues, 12 pseudobonds  

> show #!7 models

> hide #!59 models

> color zone #7 near sel distance 60

> volume splitbyzone #7

Opened Translocating_filtsharp.mrc 0 as #23.1, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 1 as #23.2, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 2 as #23.3, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 3 as #23.4, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 4 as #23.5, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  
Opened Translocating_filtsharp.mrc 5 as #23.6, grid size 270,270,270, pixel
2.59, shown at level 0.00737, step 1, values float32  

> hide #!23.1 models

> color #23.2 #d6d6d61a models

> color #23.3 #a9a9a940 models

> show #!6 models

> hide #!6 models

> show #!20 models

> hide #!20 models

> show #!20 models

> hide #!23 models

> show #!23 models

> hide #!20 models

> show #!20 models

> hide #!23 models

> show #!23 models

> hide #!23 models

> hide #!20 models

> show #!23 models

> hide #!23 models

> show #!8 models

> show #!58 models

> hide #!8 models

Drag select of 17082 residues, 11 pseudobonds  

> select subtract #58/Et)

Expected an objects specifier or a keyword  

> select subtract #58/ET

207492 atoms, 11 pseudobonds, 17005 residues, 2 models selected  

> hide #!58 models

> show #!53 models

Drag select of 440 residues  

> show #!58 models

> hide #!53 models

> hide #!58 models

> show #!8 models

> show #!61 models

> hide #!8 models

> show #!8 models

> hide #!8 models

> show #!8 models

Drag select of 3691 residues, 8 pseudobonds, 8 UnPre_cEF2_filtsharp.mrc  

> hide #!8 models

> select subtract #8

43527 atoms, 8 pseudobonds, 3691 residues, 2 models selected  

> select (sel & #61/eEF2)

4841 atoms, 4922 bonds, 624 residues, 1 model selected  

> hide #!61 models

> show #!58 models

Drag select of 17082 residues, 11 pseudobonds  

> select subtract #58/ET

212333 atoms, 4922 bonds, 11 pseudobonds, 17629 residues, 3 models selected  

> hide #!58 models

> show #!52 models

> hide #!52 models

> show #!53 models

Drag select of 440 residues  

> show #!58 models

> show #!61 models

> show #!8 models

> color zone #8 near sel distance 60

> hide #!61 models

> hide #!58 models

> hide #!53 models

> show #!16 models

> hide #!8 models

> show #!8 models

> hide #!8 models

> show #!8 models

> hide #!16 models

> open 8xu8

Summary of feedback from opening 8xu8 fetched from pdb  
---  
note | Fetching compressed mmCIF 8xu8 from http://files.rcsb.org/download/8xu8.cif  
  
8xu8 title:  
State 2c(S2c) of yeast 80S ribosome bound to compact eEF2 and 2 tRNAs during
peptidyl transferation [more info...]  
  
Chain information for 8xu8 #24  
---  
Chain | Description | UniProt  
2 | 18S rRNA |   
A | 25S rRNA |   
B | 5S rRNA |   
C | 5.8S rRNA |   
D | Large ribosomal subunit protein uL2A | RL2A_YEAST 2-252  
E | Large ribosomal subunit protein uL3 | RL3_YEAST 2-387  
F | Large ribosomal subunit protein uL4A | RL4A_YEAST 2-362  
G | Large ribosomal subunit protein uL18 | RL5_YEAST 4-297  
H | Large ribosomal subunit protein eL6B | RL6B_YEAST 2-176  
I | Large ribosomal subunit protein uL30A | RL7A_YEAST 23-244  
J | Large ribosomal subunit protein eL8A | RL8A_YEAST 24-256  
K | Large ribosomal subunit protein uL6A | RL9A_YEAST 1-191  
L | Large ribosomal subunit protein uL16 | RL10_YEAST 2-219  
M | Large ribosomal subunit protein uL5B | RL11B_YEAST 6-174  
N | Large ribosomal subunit protein eL13A | RL13A_YEAST 2-194  
O | Large ribosomal subunit protein eL14A | RL14A_YEAST 3-138  
P | Large ribosomal subunit protein eL15A | RL15A_YEAST 2-204  
Q | Large ribosomal subunit protein uL13A | RL16A_YEAST 3-199  
R | Large ribosomal subunit protein uL22A | RL17A_YEAST 2-184  
S | Large ribosomal subunit protein eL18A | RL18A_YEAST 2-186  
SA | Small ribosomal subunit protein uS3 | RS3_YEAST 4-225  
SB | Small ribosomal subunit protein uS7 | RS5_YEAST 20-225  
SC | Small ribosomal subunit protein eS10A | RS10A_YEAST 1-92  
SD | Small ribosomal subunit protein eS12 | RS12_YEAST 23-143  
SE | Small ribosomal subunit protein uS19 | RS15_YEAST 13-129  
SF | Small ribosomal subunit protein uS9A | RS16A_YEAST 3-143  
SG | Small ribosomal subunit protein eS17A | RS17A_YEAST 2-122  
SH | Small ribosomal subunit protein uS13A | RS18A_YEAST 2-146  
SI | Small ribosomal subunit protein eS19A | RS19A_YEAST 2-144  
SJ | Small ribosomal subunit protein uS10 | RS20_YEAST 20-119  
SK | Small ribosomal subunit protein eS25A | RS25A_YEAST 1-108  
SL | Small ribosomal subunit protein eS28A | RS28A_YEAST 5-67  
SM | Small ribosomal subunit protein uS14A | RS29A_YEAST 4-56  
SN | Small ribosomal subunit protein eS31 | RS31_YEAST 80-152  
SO | Small ribosomal subunit protein RACK1 | GBLP_YEAST 5-316  
SP | Small ribosomal subunit protein uS2A | RSSA1_YEAST 2-207  
SQ | Small ribosomal subunit protein eS1A | RS3A1_YEAST 2-233  
SR | Small ribosomal subunit protein uS5 | RS2_YEAST 34-249  
SS | Small ribosomal subunit protein eS4A | RS4A_YEAST 2-259  
ST | Small ribosomal subunit protein eS6A | RS6A_YEAST 1-228  
SU | Small ribosomal subunit protein eS7A | RS7A_YEAST 4-187  
SV | Small ribosomal subunit protein eS8A | RS8A_YEAST 2-199  
SW | Small ribosomal subunit protein uS4A | RS9A_YEAST 2-185  
SX | Small ribosomal subunit protein uS17A | RS11A_YEAST 4-145  
SY | Small ribosomal subunit protein uS15 | RS13_YEAST 2-151  
SZ | Small ribosomal subunit protein uS11B | RS14B_YEAST 11-137  
Sa | Small ribosomal subunit protein eS21A | RS21A_YEAST 1-87  
Sb | Small ribosomal subunit protein uS8A | RS22A_YEAST 2-130  
Sc | Small ribosomal subunit protein uS12A | RS23A_YEAST 2-145  
Sd | Small ribosomal subunit protein eS24A | RS24A_YEAST 2-135  
Se | Small ribosomal subunit protein eS26A | RS26A_YEAST 2-95  
Sf | Small ribosomal subunit protein eS27A | RS27A_YEAST 2-82  
Sg | Small ribosomal subunit protein eS30A | RS30A_YEAST 2-61  
T | Large ribosomal subunit protein eL19A | RL19A_YEAST 2-189  
U | Large ribosomal subunit protein eL20A | RL20A_YEAST 2-172  
V | Large ribosomal subunit protein eL21A | RL21A_YEAST 2-160  
W | Large ribosomal subunit protein eL22A | RL22A_YEAST 9-108  
X | Large ribosomal subunit protein uL14A | RL23A_YEAST 2-137  
Y | Large ribosomal subunit protein eL24A | RL24A_YEAST 1-126  
Z | Large ribosomal subunit protein uL23 | RL25_YEAST 22-142  
a | Large ribosomal subunit protein uL24A | RL26A_YEAST 2-126  
b | Large ribosomal subunit protein eL27A | RL27A_YEAST 2-136  
c | Large ribosomal subunit protein uL15 | RL28_YEAST 2-149  
d | Large ribosomal subunit protein eL29 | RL29_YEAST 2-59  
e | Large ribosomal subunit protein eL30 | RL30_YEAST 9-104  
f | Large ribosomal subunit protein eL31A | RL31A_YEAST 4-112  
g | Large ribosomal subunit protein eL32 | RL32_YEAST 2-128  
h | Large ribosomal subunit protein eL33A | RL33A_YEAST 2-107  
i | Large ribosomal subunit protein eL34A | RL34A_YEAST 2-113  
j | Large ribosomal subunit protein uL29A | RL35A_YEAST 2-120  
k | Large ribosomal subunit protein eL36A | RL36A_YEAST 2-100  
l | Large ribosomal subunit protein eL37A | RL37A_YEAST 2-82  
m | Large ribosomal subunit protein eL38 | RL38_YEAST 2-78  
n | Large ribosomal subunit protein eL39 | RL39_YEAST 2-51  
o | Large ribosomal subunit protein eL40A | RL40A_YEAST 77-128  
p | Large ribosomal subunit protein eL41A | RL41A_YEAST 1-25  
q | Large ribosomal subunit protein eL42A | RL44A_YEAST 2-104  
r | Large ribosomal subunit protein eL43A | RL43A_YEAST 2-92  
s t | tRNA |   
x | Elongation factor 2 | EF2_YEAST 1-842  
  
1555 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.  

> select #24/Sa:2@CB

1 atom, 1 residue, 1 model selected  

> view matrix models #24,1,0,0,-69.815,0,1,0,11.635,0,0,1,170.62

> view matrix models
> #24,0.78973,0.5874,-0.17687,-136.41,-0.22404,0.0077634,-0.97455,635.95,-0.57108,0.80926,0.13773,327.52

> view matrix models
> #24,0.95608,0.25594,-0.14284,-95.118,-0.16787,0.078686,-0.98266,600.48,-0.24026,0.96349,0.11819,189.78

> view matrix models
> #24,0.95608,0.25594,-0.14284,-126.93,-0.16787,0.078686,-0.98266,643,-0.24026,0.96349,0.11819,89.833

> view matrix models
> #24,0.95608,0.25594,-0.14284,-91.844,-0.16787,0.078686,-0.98266,525.26,-0.24026,0.96349,0.11819,31.119

> view matrix models
> #24,0.95608,0.25594,-0.14284,-53.887,-0.16787,0.078686,-0.98266,553.2,-0.24026,0.96349,0.11819,4.3094

> view matrix models
> #24,0.98965,0.088516,0.11298,-82.393,0.1004,0.1355,-0.98568,458.46,-0.10256,0.98682,0.12521,-44.873

> view matrix models
> #24,0.98965,0.088516,0.11298,-83.915,0.1004,0.1355,-0.98568,454.09,-0.10256,0.98682,0.12521,-38.336

> rename #60 id #54

> rename #24 id #55

> rename #55 "compact eEF2"

> hide #!8 models

> select #55/x:596@O

1 atom, 1 residue, 1 model selected  

> select up

9 atoms, 8 bonds, 1 residue, 1 model selected  

> select up

34 atoms, 33 bonds, 4 residues, 1 model selected  

> select up

6559 atoms, 6685 bonds, 842 residues, 1 model selected  

> show sel cartoons

> select up

209284 atoms, 224610 bonds, 17371 residues, 1 model selected  

> hide sel atoms

> select clear

> show #!61 models

> select #61/eEF2:367

8 atoms, 7 bonds, 1 residue, 1 model selected  

> color sel #008f00ff

> color sel #4f8f00ff

> select clear

> select #55/x:641

8 atoms, 7 bonds, 1 residue, 1 model selected  

> select up

31 atoms, 31 bonds, 5 residues, 1 model selected  

> select up

6559 atoms, 6685 bonds, 842 residues, 1 model selected  

> color sel #8efa00ff

> color sel #4f8f00ff

> select clear

> hide #!61 models

> hide #!55 models

> show #!8 models

> show #!55 models

> hide #!8 models

> show #!58 models

Drag select of 17924 residues, 11 pseudobonds  

> select subtract #58/ET

214051 atoms, 11 pseudobonds, 17847 residues, 3 models selected  

> show #!52 models

> hide #!52 models

> show #!53 models

> hide #!55 models

> hide #!58 models

Drag select of 440 residues  

> show #!55 models

> show #!58 models

> hide #!53 models

> hide #!55 models

> hide #!58 models

> show #!8 models

> color zone #8 near sel distance 60

> show #!55 models

> show #!59 models

> hide #!55 models

> show #!55 models

> hide #!59 models

> volume splitbyzone #8

Opened UnPre_cEF2_filtsharp.mrc 0 as #24.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 1 as #24.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 2 as #24.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 3 as #24.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 4 as #24.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 5 as #24.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 6 as #24.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  

> close #24

> hide #!55 models

> show #!58 models

> show #!55 models

> show #!61 models

> hide #!61 models

> show #!61 models

> hide #!55 models

> hide #!58 models

Drag select of 4227 residues, 9 pseudobonds  
Drag select of 6834 residues, 9 pseudobonds  

> select (sel & #61/18S)

27995 atoms, 31300 bonds, 1054 pseudobonds, 1313 residues, 3 models selected  

> hide #!61 models

> show #!58 models

Drag select of 17082 residues, 11 pseudobonds  

> select subtract #58/ET

235487 atoms, 31300 bonds, 1065 pseudobonds, 18318 residues, 5 models selected  

> hide #!58 models

> show #!55 models

> show #!52 models

> hide #!52 models

> show #!53 models

Drag select of 1282 residues  

> show #!8 models

> color zone #8 near sel distance 60

> hide #!55 models

> hide #!53 models

> show #!61 models

> hide #!8 models

> show #!55 models

> show #!8 models

> show #!59 models

> hide #!8 models

> hide #!55 models

> hide #!59 models

> hide #!61 models

> show #!61 models

> hide #!61 models

> show #!61 models

Drag select of 1927 residues, 2 pseudobonds  

> select subtract #61/eEF2

21613 atoms, 2 pseudobonds, 1870 residues, 2 models selected  

> show #!58 models

> hide #!61 models

Drag select of 17082 residues, 11 pseudobonds  

> select subtract #58/ET

229105 atoms, 13 pseudobonds, 18875 residues, 4 models selected  

> hide #!58 models

> show #!55 models

> show #!52 models

> hide #!52 models

> show #!53 models

Drag select of 1282 residues  

> hide #!53 models

> hide #!55 models

> show #!8 models

> color zone #8 near sel distance 60

> show #!55 models

> show #!58 models

> hide #!8 models

> show #!59 models

> show #!61 models

> hide #!55 models

> hide #!58 models

> hide #!59 models

> show #!59 models

> hide #!61 models

> show #!58 models

> hide #!58 models

> hide #!59 models

> show #!61 models

> show #!8 models

> show #!55 models

> volume splitbyzone #8

Opened UnPre_cEF2_filtsharp.mrc 0 as #24.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 1 as #24.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 2 as #24.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 3 as #24.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 4 as #24.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 5 as #24.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  
Opened UnPre_cEF2_filtsharp.mrc 6 as #24.7, grid size 270,270,270, pixel 2.59,
shown at level 0.00661, step 1, values float32  

> name frozen unpre2colourdivisions sel

> select add #55

442193 atoms, 224610 bonds, 4878 pseudobonds, 36686 residues, 8 models
selected  

> select subtract #55

232909 atoms, 13 pseudobonds, 19315 residues, 5 models selected  

> select add #61

418362 atoms, 221714 bonds, 5080 pseudobonds, 35048 residues, 7 models
selected  

> select subtract #61

211296 atoms, 11 pseudobonds, 17445 residues, 3 models selected  

> hide #!61 models

> hide #!55 models

> hide #!24.1 models

> color #24.2 #d6d6d61a models

> color #24.3 #a9a9a942 models

> color #24.3 #a9a9a941 models

> hide #!24 models

> show #!9 models

> show #!58 models

> color zone #9 near sel distance 60

> volume splitbyzone #9

Opened UnPre_none_filtsharp.mrc 0 as #25.1, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 1 as #25.2, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 2 as #25.3, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 3 as #25.4, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 4 as #25.5, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  
Opened UnPre_none_filtsharp.mrc 5 as #25.6, grid size 270,270,270, pixel 2.59,
shown at level 0.00679, step 1, values float32  

> hide #!25.1 models

> color #25.2 #d6d6d61a models

> color #25.3 #a9a9a945 models

> color #25.3 #a9a9a941 models

> color #25.3 #a9a9a948 models

> hide #!58 models

> save
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/20260217_FinaldensitiesWIP.cxs
> includeMaps true

> show #!24 models

> show #!23 models

> show #!22 models

> show #!21 models

> show #!20 models

> show #!19 models

> show #!18 models

> surface dust #18-26 size 10

> surface dust #18-26 size 20

> surface dust #18-26 size 40

> surface dust #18-26 size 30

> surface dust #18-26 size 20

> surface undust all

> hide #!19 models

> hide #!20 models

> hide #!21 models

> hide #!22 models

> hide #!23 models

> hide #!24 models

> hide #!25 models

> surface dust #18-26 size 7

> surface dust #18-26 size 2

> surface dust #18-26 size 5

> surface dust #18-26 size 8

> surface dust #18-26 size 7

> surface dust #18-26 size 5

> surface undust #18-26 size 5

Expected fewer arguments  

> surface undust #18-26

> surface undust #18.2,18.3 size 25

Expected fewer arguments  

> surface dust #18.2,18.3 size 25

No surfaces specified  

> surface dust #18.2 size 25

> surface dust #18.3 size 25

> surface dust #18.4 size 3

> surface dust #18.5 size 3

> surface dust #18 size 5

> surface dust #18 size 1

> surface dust #18 size 5

> surface dust #18 size 8

> surface dust #18 size 10

> surface dust #18 size 5

> surface dust #18 size 20

> surface dust #18 size 1

> surface dust #18 size 20

> surface dust #18.7 size 3

> surface dust #18.7 size 5

> surface dust #18.7 size 3

> surface dust #18.7 size 5

> surface dust #18.7 size 10

> surface dust #18.7 size 15

> surface dust #18 size 20

> surface dust #18.7 size 15

> surface dust #18 size 15

> hide #!18 models

> show #!19 models

> surface dust #19 size 15

> surface dust #19 size 20

> hide #!19 models

> show #!20 models

> surface dust #20 size 15

> surface dust #20 size 5

> surface dust #20 size 7

> surface dust #20 size 0

> surface dust #20 size 7

> surface dust #20 size 20

> surface dust #20.6 size 5

> surface dust #20.6 size 6

> surface dust #20.6 size 7

> surface dust #20.5 size 7

> surface dust #20.5 size 10

> surface dust #20.5 size 7

> hide #!20 models

> show #!21 models

> surface dust #21 size 20

> surface dust #21 size 30

> hide #!21 models

> show #!20 models

> hide #!20 models

> show #!22 models

> surface dust #22 size 30

> show #!14 models

> hide #!22 models

> show #!22 models

> hide #!14 models

> show #!14 models

> hide #!22 models

> show #!22 models

> hide #!22 models

> show #!22 models

> show #!13 models

> hide #!13 models

> hide #!14 models

> open
> /Users/campbell/Desktop/workspaces/hd_tn298-Comb_2025/BfactorScreener/20260216_MMS_Rotated_Bfactorscreening/LocRes_Bfac_-300_locres_filtered.mrc

Opened LocRes_Bfac_-300_locres_filtered.mrc as #26, grid size 270,270,270,
pixel 2.59, shown at level 0.0132, step 2, values float32  

> select #26

2 models selected  

> view matrix models #26,1,0,0,85.451,0,1,0,93.55,0,0,1,25.559

> hide #!26 models

> show #!14 models

> hide #!22 models

> show #!26 models

> show #!6 models

> hide #!6 models

> show #!6 models

> hide #!26 models

> hide #!22.5 models

> show #!22.5 models

> hide #!22 models

> hide #!6 models

> show #!22 models

> hide #!14 models

> hide #!22 models

> show #!6 models

> show #!22 models

> hide #!6 models

> show #!14 models

> hide #!22 models

> show #!22 models

> hide #!14 models

> show #!14 models

> hide #!22 models

> show #!22 models

> hide #!14 models

> show #!14 models

> show #!21 models

> hide #!21 models

> show #!21 models

> hide #!21 models

> show #!26 models

> hide #!26 models

> hide #!22 models

> show #!21 models

> hide #!21 models

> show #!22 models

> hide #!14 models

> hide #!22 models

> show #!21 models

> hide #!21 models

> show #!22 models

> hide #!22 models

> show #!21 models

> show #!14 models

> hide #!21 models

> show #!21 models

> hide #!21 models

> hide #!14 models

> show #!14 models

> show #!22 models

> hide #!14 models

> show #!14 models

> hide #!22 models

> color #22.5 #fea33eff models

> show #!22 models

> hide #!14 models

> show #!14 models

> hide #!14 models

> surface dust #22 size 15

> surface undust #22

> hide #!22 models

> show #!14 models

> hide #!14 models

> show #!15 models

> hide #!15 models

> show #!23 models

> surface dust #23 size 20

> surface dust #23 size 30

> surface dust #23 size 40

> hide #!23 models

> show #!24 models

> select subtract #26

Nothing selected  

> surface dust #24 size 20

> surface dust #24 size 5

> surface dust #24 size 20

> hide #!24 models

> show #!25 models

> surface dust #25 size 20

> surface dust #25 size 25

> surface dust #25 size 15

> show #!24 models

> hide #!24 models

> surface dust #25 size 5

> surface dust #25 size 15

> surface dust #25 size 20

[Repeated 1 time(s)]

> show #!24 models

> hide #!25 models

> hide #!24 models

> show #!25 models

> hide #!25 models

> show #!24 models

> hide #!24 models

> show #!25 models

> show #!24 models

> hide #!24 models

> hide #!25 models

> show #!24 models

> hide #!24 models

> show #!23 models

> hide #!23 models

> show #!22 models

> hide #!22 models

> show #!21 models

> show #!22 models

> hide #!21 models

> lighting full

> show #!25 models

> hide #!22 models

> graphics silhouettes false

> graphics silhouettes true

> lighting soft

> lighting simple

> hide #!25 models

> show #!24 models

> hide #!24 models

> show #!25 models

> graphics silhouettes false

> graphics silhouettes true

> graphics silhouettes true width 2

> graphics silhouettes true width 1

> graphics silhouettes true width 3

> graphics silhouettes true width 2

> graphics silhouettes true

> graphics silhouettes true depthJump 0.01

> graphics silhouettes true depthJump 0.02

> graphics silhouettes true depthJump 0.01

> graphics silhouettes true depthJump 0.03

> graphics silhouettes true depthJump 0.02

> hide #!25 models

> show #!24 models

> hide #!24 models

> show #!23 models

> graphics silhouettes true depthJump 0.01 width 1

> show #!24 models

> hide #!23 models

> hide #!24 models

> show #!25 models

> hide #!25 models

> show #!24 models

> hide #!24 models

> show #!23 models

> hide #!23 models

> show #!22 models

> hide #!22 models

> show #!21 models

> hide #!21 models

> show #!20 models

> hide #!20 models

> show #!19 models

> hide #!19 models

> show #!18 models

> show #!10 models

> hide #!10 models

> show #!10 models

> hide #!18 models

> show #!18 models

> hide #!10 models

> show #!10 models

> hide #!18 models

> show #!18 models

> hide #!18 models

> show #!18 models

> hide #!18 models

> lighting simple

[Repeated 1 time(s)]

> lighting full

> lighting simple

> lighting full

> graphics silhouettes true depthJump 0.01 width 1

> lighting full

> graphics silhouettes true width 2

> show #!18 models

> hide #!10 models

> show #!10 models

> hide #!18 models

> lighting full

[Repeated 1 time(s)]

> graphics silhouettes true depthJump 0.01 width 1

> graphics silhouettes true depthJump 0.01 width 1 width 1.5

Repeated keyword argument "width"  

> graphics silhouettes true depthJump 0.01 width 1.5

> hide #!10 models

> show #!18 models

> hide #!18 models

> show #!19 models

> hide #!19 models

> show #!20 models

> hide #!20 models

> show #!21 models

> hide #!21 models

> show #!22 models

> hide #!22 models

> show #!23 models

> hide #!23 models

> show #!19 models

> show #!11 models

> hide #!11 models

> color #19.4 #71a507ff models

> show #!11 models

> hide #!19 models

> show #!19 models

> color #19.4 #669900ff models

> hide #!11 models

> show #!11 models

> hide #!11 models

> color #19.4 #71a507ff models

> color #19.4 #669900ff models

> hide #!19 models

> show #!20 models

> color #20.4 #669900ff models

> show #!11 models

> hide #!11 models

> show #!11 models

> hide #!11 models

> hide #!20 models

> show #!21 models

> show #!13 models

> hide #!13 models

> hide #!21 models

> show #!22 models

> color #22.5 #ff9933ff models

> surface dust #22 size 5

> surface dust #22 size 10

> hide #!22 models

> show #!23 models

> color #23.6 #fea33eff models

> color #23.6 #ff9933ff models

> color #23.5 #669900ff models

> hide #!23 models

> show #!24 models

> color #24.7 #669900ff models

> hide #!24 models

> show #!25 models

> hide #!25 models

> show #!12 models

> lighting soft

> lighting flat

> lighting shadows true intensity 0.5

> graphics silhouettes false

> graphics silhouettes true

> lighting soft

> lighting full

> graphics silhouettes true depthJump 0.01 width 1.5

> undo

> show #!15 models

> hide #!15 models

> show #!16 models

> hide #!16 models

> show #!12 models

> hide #!12 models

> show #!18 models

> show #!19 models

> show #!20 models

> show #!21 models

> show #!22 models

> show #!23 models

> show #!24 models

> show #!25 models

> save
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/20260217_FinaldensitiesWIP.cxs
> includeMaps true

——— End of log from Tue Feb 17 16:29:23 2026 ———

> view name session-start

opened ChimeraX session  

> close #26

> rename #18 id #26

> rename #10 id #18

> save
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/20260217_FinaldensitiesWIP.cxs
> includeMaps true

——— End of log from Fri Feb 20 10:54:41 2026 ———

> view name session-start

opened ChimeraX session  

> open
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/MMS_Outputs/Rotated_filt.mrc

Opened Rotated_filt.mrc as #10, grid size 270,270,270, pixel 2.59, shown at
level 0.00669, step 2, values float32  

> select #10

2 models selected  

> ui mousemode right "translate selected models"

> view matrix models #10,1,0,0,-102.02,0,1,0,-88.765,0,0,1,-91.88

> view matrix models #10,1,0,0,-96.025,0,1,0,-89.937,0,0,1,-96.764

> fitmap #10 inMap #50

Fit map Rotated_filt.mrc in map Stable_60S.mrc using 24595 points  
correlation = 0.785, correlation about mean = 0.2895, overlap = 130  
steps = 64, shift = 3.67, angle = 0.374 degrees  
  
Position of Rotated_filt.mrc (#10) relative to Stable_60S.mrc (#50)
coordinates:  
Matrix rotation and translation  
0.99999181 -0.00087078 -0.00395356 -93.41351100  
0.00085056 0.99998657 -0.00511144 -90.54711300  
0.00395796 0.00510804 0.99997912 -96.93911107  
Axis 0.78381459 -0.60679855 0.13202353  
Axis point 0.00000000 18086.94381938 -21450.90984344  
Rotation angle (degrees) 0.37351787  
Shift along axis -31.07325861  
  

> hide #!19 models

> hide #!20 models

> hide #!21 models

> hide #!22 models

> hide #!23 models

> hide #!24 models

> hide #!25 models

> hide #!26 models

> volume #10 step 1

> select clear

> show #!51 models

> show #!59 models

> hide #!10 models

Drag select of 17213 residues, 12 pseudobonds  

> ui tool show "Color Zone"

> color zone #10 near sel distance 15.54

> color zone #10 near sel distance 6

> color zone #10 near sel distance 60

> show #!10 models

> hide #!51 models

> hide #!59 models

> select clear

> volume splitbyzone #10

Opened Rotated_filt.mrc 0 as #27.1, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 1 as #27.2, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 2 as #27.3, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 3 as #27.4, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  
Opened Rotated_filt.mrc 4 as #27.5, grid size 270,270,270, pixel 2.59, shown
at level 0.00669, step 1, values float32  

> save
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/rotationWIP.cxs
> includeMaps true

——— End of log from Fri Feb 20 14:46:45 2026 ———

> view name session-start

opened ChimeraX session  

> color #27.2 #d6d6d619 models

> color #27.3 #a9a9a942 models

> color #27.3 #a9a9a93f models

> color #27.5 #ff9933ff models

> hide #!27.1 models

> surface dust #27.2 size 25.9

> surface dust #27.3 size 25.9

> surface dust #27.4 size 25.9

> surface dust #27.5 size 25.9

> show #!23 models

> hide #!27 models

> show #!27 models

> hide #!23 models

> show #!21 models

> lighting full

> hide #!21 models

> show #!21 models

> hide #!27 models

> lighting full

> lighting simple

> lighting full

> lighting flat

> lighting full

> graphics silhouettes true jumpDepth 0.01

Expected a keyword  

> graphics silhouettes true depthJump 0.01

> graphics silhouettes true width 1.5 depthJump 0.01

> graphics silhouettes true width 2 depthJump 0.01

> graphics silhouettes true width 2 depthJump 0.02

> graphics silhouettes true width 2 depthJump 0.03

> graphics silhouettes true width 2 depthJump 0.01

> graphics silhouettes true width 2 depthJump 0.015

> show #!27 models

> hide #!21 models

> show #!23 models

> hide #!27 models

> show #!27 models

> hide #!23 models

> save /Users/campbell/Desktop/image1.png supersample 3

> save
> /Users/campbell/Desktop/Chimera_sessions/Manuscript1/Ribofigs/20260217_FinaldensitiesWIP.cxs
> includeMaps true

——— End of log from Fri Feb 20 15:29:20 2026 ———

> view name session-start

opened ChimeraX session  
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.  
  
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.  
  
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 M3
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: Mac15,3
      Model Number: Z1C9000SED/A
      Chip: Apple M3
      Total Number of Cores: 8 (4 Performance and 4 Efficiency)
      Memory: 16 GB
      System Firmware Version: 13822.81.10
      OS Loader Version: 13822.81.10

Software:

    System Software Overview:

      System Version: macOS 26.3 (25D125)
      Kernel Version: Darwin 25.3.0
      Time since boot: 1 day, 2 hours, 17 minutes

Graphics/Displays:

    Apple M3:

      Chipset Model: Apple M3
      Type: GPU
      Bus: Built-In
      Total Number of Cores: 10
      Vendor: Apple (0x106b)
      Metal Support: Metal 4
      Displays:
        HP U32 4K HDR:
          Resolution: 5120 x 2880 (5K/UHD+ - Ultra High Definition Plus)
          UI Looks like: 2560 x 1440 @ 60.00Hz
          Main Display: Yes
          Mirror: Off
          Online: Yes
          Rotation: Supported
          Television: Yes


Installed Packages:
    alabaster: 1.0.0
    annotated-types: 0.7.0
    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-ArtiaX: 0.6.0
    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
    geomdl: 5.4.0
    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
    pandas: 2.3.1
    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
    pyarrow: 21.0.0
    pycollada: 0.8
    pydantic: 2.11.7
    pydantic_core: 2.33.2
    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
    starfile: 0.5.13
    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-inspection: 0.4.1
    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 (1)

comment:1 by Eric Pettersen, 19 hours 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 Zac Campbell

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