[Chimera-users] H bonds

[Elaine Meng]

Hi Kloe,
I mentioned the FindHBond tool in my previous reply to you.  Did you try it?

<http://plato.cgl.ucsf.edu/pipermail/chimera-users/2018-December/015299.html>

> Open tools from the Chimera Tools menu, for example:
> 
> Tools… Structure Analysis… FindHBond
> Tools… Structure Analysis… Find Clashes/Contacts

If you show a tool and click the Help button on that tool, it will explain the options.

Also, you should go through the “Structure Analysis and Comparison” tutorial, which includes FIndHBond and some other things for looking at ligand-receptor interactions

<http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/squalene.html>

Best,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Dec 29, 2018, at 3:43 PM, kloe brathon <kloebrathon at yahoo.com> wrote:
> 
> Dear Chimera users,
> I want to calculate H bonds between the ligand of my protein and its nearby residues. Could you give any suggestions on how to select this residues and calculate H bonds between them and the ligand?
> Kind regards,
> Kloe