Opened 3 years ago
Closed 2 years ago
#6762 closed defect (fixed)
matchmaker showAlignment tries to calculate CA RMSD header for nucleic acids
Reported by: | Owned by: | pett | |
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Priority: | high | Milestone: | |
Component: | Sequence | Version: | |
Keywords: | Cc: | ||
Blocked By: | Blocking: | ||
Notify when closed: | Platform: | all | |
Project: | ChimeraX |
Description (last modified by )
From: "Rundlet, Emily via ChimeraX-users" <chimerax-users@…>
Subject: [chimerax-users] Color by RMSD for nucleic acid
Date: April 30, 2022 at 10:59:22 AM PDT
To: "chimerax-users@…" <chimerax-users@…>
Reply-To: "Rundlet, Emily" <Emily.Rundlet@…>
Hi ChimeraX developers,
Is there a way to color nucleic acids by seq_rmsd?
When I use the following, no atoms are colored.
mm #1 to #2 matrix Nucleic showAlignment true
color byattribute seq_rmsd #2
Thank you in advance for your help!
-Emily
From: Elaine Meng via ChimeraX-users <chimerax-users@…>
Subject: Re: [chimerax-users] Color by RMSD for nucleic acid
Date: May 1, 2022 at 9:02:55 AM PDT
To: "Rundlet, Emily" <Emily.Rundlet@…>
Hi Emily,
That is a bug -- the problem is that currently, ChimeraX assumes the alignment is protein and tries to calculate the alpha-carbon RMSD rather than using nucleic-acid atoms. I will create a bug ticket with you as the reporter so that you will be notified of any fixes.
Change History (2)
comment:1 by , 3 years ago
Status: | assigned → accepted |
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comment:2 by , 2 years ago
Description: | modified (diff) |
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Resolution: | → fixed |
Status: | accepted → closed |
Nucleic alignments now use C4' instead of C-alpha for RMSD header.