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. Thanks for reporting it! Best, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Apr 30, 2022, at 10:59 AM, Rundlet, Emily via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
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