[Chimera-users] change aminoacid in sequence alignment

[Jacqueline Vitali]

Thanks Elaine.

At the end I selected the specific residue (X) and I went to
Tools>structure editing>rotamers and selected Lys there.  Then stored the
session.  On reopenong the residue was K.

Jackie Vitali

On Thu, Feb 24, 2022 at 11:50 AM Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi Jackie,
> If the PDB file has a MODRES record that specifies the "normal" form of
> the residue, then I believe it will show up as K when you display the
> sequence.
>
> For example, if I use these commands
>
> open 7k3m
> select :kcx
>
> ...and then show its sequence (menu: Favorites... Sequence) I can see that
> the selected residue is "K" in the sequence.
>
> The PDB file for 7k3m contains this MODRES line:
>
> MODRES 7K3M KCX A   71  LYS  MODIFIED RESIDUE
>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> > On Feb 23, 2022, at 11:39 PM, Jacqueline Vitali <jackie.vitali at gmail.com>
> wrote:
> >
> > I have a "residue" KCX (PDB records are Hetatm).  In the sequence
> alignment it comes as X.  Is there a way to change it to K without making a
> PDB file and changing it to K there?  Thank you,.
> >
> > Jackie Vitali
> > Cleveland State University
>
>
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