[Chimera-users] Can I use Chimera to report psi-phi angles
meng at cgl.ucsf.edu
Tue Mar 23 11:56:45 PDT 2010
As soon as you open a protein structure, the angle values are
available as the residue attributes named "phi" and "psi". Chimera
doesn't make a Ramachandran plot, but you can write out the values to
a file or show them as labels (or as colors etc. just like any other
To save the values to a file or show them with colors etc., you would
use Render by Attribute (under Tools... Structure Analysis) as
How to save to a file is described at the very bottom of that page.
To show the values as labels you could use "Actions... Label...
residue... custom" and substitute phi or psi for name or number, but
the values are not rounded and not easy to view all at once. It is
reasonable if you only select and label a few residues at a time,
I hope this helps,
Elaine C. Meng, Ph.D.
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
On Mar 23, 2010, at 4:00 AM, Sumitro Harjanto wrote:
> Hi ,
> Is it possible to use chimera to report the psi-phi angle of pdb
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