[Chimera-users] Morph conformation - side chains

[Elaine Meng]

Hi Zaher,
Actually Morph Conformations does include all of the sidechains for the residues that are the same type (e.g. PHE in both structures), so if the two conformations are the enzyme with the same sequence, it should include everything except the TYR->TPO phosphate part. The manual page explains what atoms are included:
<http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/morph/morph.html#pairing>

Probably you just need to display the atoms, e.g. command “display” or menu: Actions… Atoms/Bonds… show
(you may want to try the Getting Started tutorial: <http://www.rbvi.ucsf.edu/Outreach/Tutorials/GettingStarted.html>)

This is a common morphing situation… see for example the first movie in the Chimera animation gallery:
<http://www.rbvi.ucsf.edu/chimera/animations/animations.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 Jan 27, 2019, at 2:24 PM, arrafzaher at campus.technion.ac.il wrote:
> 
> Hi,
> I noticed Morph conformation only compares backbone
> Is it possible to compare side chains conformation change
> Lets say enzyme vs. phosphorylated same enzyme on a tyrosine residue (TPO) 
> Thanks 
> Zaher