[Chimera-users] Restoring the original numbering of the amino acids of a chain after a Loop Modeling

[Elaine Meng]

Hi Saverio,
Models from Modeller often have different numbering than the original.

If the original numbering is sequential, you can apply it to the new model(s) using the Renumber Residues tool, menu: Tools... Structure Editing... Renumber Residues, or you can use the "resrenumber" command to do the same thing.

<https://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/editing/renumber.html>
<https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/resrenumber.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 Mar 20, 2023, at 1:24 AM, saverio via Chimera-users <chimera-users at cgl.ucsf.edu> wrote:
> 
> Hi,
> after a modeling a missing loop in a chain of a protein the amino acid numbering has  been shifted by -1 due , I guess , to the "no
> corresponding structure residue" that I read in the status bar of the panel for Tool --> Sequence --> Sequence
> in the first position.
> The catalytic triad of interest now has positions X-1 , Y-1 and Z-1 instead of X,Y and Z.
> It is possible to restore the original numbering?
> 
> Thanks.
> Saverio