[Chimera-users] Editing sequences within Chimera

[Joshua Plank]

This is exactly what I was looking for. Thank you for the help.

Josh

On Fri, Jul 26, 2019 at 7:54 AM Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Josh,
> I guess you mean actually changing the 3D structure.  Yes, you can “swap”
> amino acids by replacing side chains with the Rotamers tool (menu: Tools..
> Structure Editing… Rotamers) or the “swapaa” command.  This only does a
> simple replacement; it does not predict any large/overall changes in the
> structure.
>
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/savemodel.html>
> <
> http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/rotamers/framerot.html
> >
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/swapaa.html>
>
> There is an example of using Rotamers in the Structure Analysis and
> Comparison tutorial.
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/squalene.html>
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Jul 25, 2019, at 2:00 PM, Joshua Plank <jplan002 at ucr.edu> wrote:
> >
> > Hi,
> > I am wondering if it is possible to edit the amino acid sequence
> somehow? I have a .pdb file of the protein I'm interested in, but would
> like to change two of the amino acids to something else. Is this possible?
> > thanks,
> > Josh
>
>

-- 
*Joshua Plank*
*PhD Student*
*Department of Electrical and Computer Engineering*
*University of California, Riverside*
*email: jplan002 at ucr.edu <jplan002 at ucr.edu>*
*phone: 505-977-9919*
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