[Chimera-users] How to study residue-residue interactions in Chimera?

Elaine Meng meng at cgl.ucsf.edu
Thu Jan 17 10:29:43 PST 2019

Apologies, accidentally clicked “send” before I was done with writing the reply… here is the link for the “Structure Analysis and Comparison” tutorial:


I hope this helps,

> On Jan 17, 2019, at 10:23 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> Dear Ahmad Khalifa,
> For general information of what’s in Chimera, you can look at the User’s Guide, which lists all the tools and commands with short descriptions of each:
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/index.html>
> You can also search for words like “interactions” or “H-bonds” using menu: Help… Search Documentation.
> Open the tools that you want to use from the Chimera Tools menu, for example:
> Tools… Structure Analysis… FindHBond
> Tools… Structure Analysis… Find Clashes/Contacts
> There are many tutorials, including “Getting Started” for new users,
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/frametut.html>
> “Structure Analysis and Comparison” for examples of finding H-bonds and clashes, etc.
> <https://www.rbvi.ucsf.edu/Outreach/Tutorials/GettingStarted.html>
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>> On Jan 17, 2019, at 8:32 AM, Ahmad Khalifa <underoath006 at gmail.com> wrote:
>> How to study residue-residue interactions in Chimera? How can I show the bonds of the interacting residues?
>> Regards. 

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