[Chimera-users] internal coordinates (z-matrix) in chimera

Elaine Meng meng at cgl.ucsf.edu
Fri Mar 8 09:08:07 PST 2013

Hi Chinh,
For scripting measurements (distance, angle, torsion) you can use commands: distance, angle

These measurements are specified individually.  Chimera does not have an option to write out a Z-matrix, sorry.

More info on writing Chimera scripts to process multiple data files:

I hope this helps,
Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Mar 8, 2013, at 12:01 AM, Chinh Su Tran To wrote:

> Hi,
> I have some results after running docking from DOCK.
> I'd like to obtain information of internal coordinates (bond, angle, torsion OR z-matrix).
> Could anyone please give me any suggestion how to do that in Chimera? Or if possible, please suggest me some references that can help me find it out.
> I have bunch of conformations, so I may not use the gui. 
> Thank you.
> Chinh

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