[Chimera-users] Flipping between alternate conformations (depiction/movie)

Elaine Meng meng at cgl.ucsf.edu
Tue Aug 19 11:26:57 PDT 2008

Hi Dave,
The Morph Conformations tool (under Tools... Structure Comparison)  
generates interpolated intermediate structures and then opens the  
result as a trajectory in the MD Movie tool.  With MD Movie you can  
interactively play the trajectory but also save a movie file.

These are not in command form, however.  Take a look and see if these  
tools allow you to do what you want...

Morph Conformations:

MD Movie:

Tutorials with morphing examples:

Tutorial that includes saving a movie with MD Movie:

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

On Aug 19, 2008, at 11:11 AM, David Chenoweth wrote:

> Dear Chimera team,
> Is there a movie command that can easily depict the interconversion
> between two alternate conformations in a nucleic acid or protein
> residue (designated conformation a and b) within a pdb file. I am
> really trying to illustrate with a movie how the phosphates flip
> between two well defined states in an ultra-high resolution DNA
> crystal structure using a chimera movie.
> Thanks in advance,
> Dave Chenoweth

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