[Chimera-users] Modeling of mutlichain protein complex

[Elaine Meng]

Hi Amit,
You cannot model a multichain complex with the Chimera interface to Modeller, only a single chain.

>From the manual page:
<http://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/multalignviewer/modeller.html#comparative>

"With this interface, *only a single chain or subunit can be modeled at a time.*"

However, with the Modeller interface in our newer program, ChimeraX, you could model a multichain complex if you have the following required inputs:

(a) a multichain complex structure to use as the template (the calculation will not guess how to arrange the proteins, it has to be provided in the template)

(b) a target-template sequence alignment for each different protein in the complex, e.g., if a homomultimer you only need one sequence alignment

See the ChimeraX User Guide for details and instructions.
<http://rbvi.ucsf.edu/chimerax/docs/user/tools/modeller.html>

ChimeraX is free for noncommercial use, like Chimera
<http://www.rbvi.ucsf.edu/chimerax/index.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 Aug 15, 2020, at 12:41 PM, amit gaur <cdriamitgaur at gmail.com> wrote:
> 
> Hi,
>    I am trying to model a multichain protein complex using modeller extension in chimera. But, I do.nt know how to do that? Can some one help me with this ?
> Thanks
> -- 
> Dr. Amit Gaur