[Chimera-users] showing conservation

[Elaine Meng]

On Jan 7, 2010, at 6:30 PM, gytjyb wrote:

> hello,
> 1 how can i use this software to do molecular dynasty?
> 2 can you tell me how to asure conservation sequence through  
> protein alignment.
>   maybe this is just for basic knowledge,but i am a freshman.
>

Hello,
It is better to send Chimera questions to chimera-users at cgl.ucsf.edu  
instead of just to me.

(1) maybe you mean molecular dynamics - sorry, Chimera does not do  
molecular dynamics.

(2) I recommend going through some of the Chimera tutorials.  There  
are some beginner tutorials and others that include showing  
conservation and aligning protein structures.  You can see the  
tutorials by choosing "Help... Tutorials" from the Chimera menu, or  
by going to our web site:
<http://www.cgl.ucsf.edu/chimera/current/docs/UsersGuide/frametut.html>

Also, I have my own page on where you can get sequence alignments for  
viewing in Chimera:
<http://www.cgl.ucsf.edu/home/meng/sources.html>

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