[Chimera-users] Alignment

[bodvael email]

Hi,

I have never used Chimera so please bear with me. I have this short peptide
sequence (8 aa) that I want to locate in the secondary structure of a
protein which I have opened in chimera. Is there a way to highlight the
sequence in a particular color in the 3D model and/or only have the
aminoacid numbering in this region?

Also, I would like to view a linear alignment of the entire
protein sequence with my peptide sequence of interest. I was able to do
that and see that the peptide sequence falls in a beta-sheet (green color).
Is there any way know which strand it is exactly? It is supposed to be in
strand 5 but I don't know how to display strand numbers, or verify with
certainty that it is indeed strand 5 and not strand 6 for example.

Thanks,
Bodvael
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/attachments/20111114/c9f9bbc7/attachment.html>