[Chimera-users] chimera visualization

Elaine Meng meng at cgl.ucsf.edu
Mon Aug 31 09:20:21 PDT 2015


Dear Valerio,
It should be no problem.  Just superimpose the structures and show their backbones as sticks, in the same way as for crystal structures. 

You could superimpose with MatchMaker (in menu under Tools… Structure Comparison) or with Ensemble Match (in menu under Tools… MD/Ensemble Analysis).  
<www.rbvi.ucsf.edu/chimera/docs/UsersGuide/superposition.html>

There are examples of using these tools in various tutorials:
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/alignments.html>
<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/ensembletut.html>

You can show backbone sticks with the Actions menu or with commands, for example:

open 1g1p
~ribbon
disp @n,ca,c,o

I hope this helps,
Elaine
----------
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Aug 31, 2015, at 5:19 AM, Valerio Chiarini <valerio.chiarini at helsinki.fi> wrote:
> 
> Dear Elaine,
> I would like to produce images from chimera showing an NMR bundle structure (backbone only) with stick-represented residues each one belonging to different single structures. I know it´s possible to do it with pymol but unfortunately the structures superimposition is not as good as in chimera. Would it be possible?
> Thank you in advance,
> Valerio




More information about the Chimera-users mailing list