[Chimera-users] Sequence alignment

Elaine Meng meng at cgl.ucsf.edu
Thu Dec 1 10:55:45 PST 2005

Hi David,
Any selection on the structure is automatically shown in the  
associated sequence in the alignment.  The default is a dark green  
outline box. If you open the Region Browser (from the sequence  
window  menu, Tools... Region Browser) you can see the region, named  
"Chimera selection," and its border color and interior color  
settings.  If you want a different color scheme to be used, click on  
the color wells and edit the colors as desired.

On Dec 1, 2005, at 9:48 AM, David G. Morgan wrote:

> Hi,
> 	I'm learning to use the sequence alignment tools in chimera.  I
> know that I can highlight sequences in the alignment window and select
> residues in the structure, but is it possible to do the opposite?  In
> other words, I'd like to box or otherwise select some residue(s) in  
> the
> structure and have that region highlighted or otherwise marked in the
> aligned sequence window.
>                     David Gene Morgan
>              Advanced Microscopy & Proteomics
>                 Molecular & Cellular Biology
>              University of California at Davis
>                     530 752 2693 (lab)
>                     530 752 3085 (FAX)
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> Chimera-users mailing list
> Chimera-users at cgl.ucsf.edu
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Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

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