[Chimera-users] morphing movie

Elaine Meng meng at cgl.ucsf.edu
Fri Nov 30 10:51:56 PST 2007

>  Actually I would like to do some movie with chimera but I never used  
> before. I have two crystal structure of two different conformation of  
> the protein that I work with. I would like to see the trajectory from  
> conformation 1 to 2. I just downloaded the chimera but I don't know  
> how to start.
> Could you tell me how to make the movie? I would appreciate you help.
> Is that possible to load molecule 1 and 2 and see how the trajectory  
> is ?

Begin forwarded message:

From: Elaine Meng <meng at cgl.ucsf.edu>
Date: November 30, 2007 10:29:41 AM PST

It sounds like you want to use the Morph Conformations tool (under  
Tools... Structure Comparison).  If you have two structures, it will  
"make up" a series of in-between structures to create a trajectory. You  
have to match (superimpose) the two structures yourself first.  There  
are different options of how to make the in-between structures and how  
many to make.  The trajectory-viewing tool, MD Movie, is automatically  
started to show the trajectory.  From MD Movie you can record the  
trajectory as a movie file (Quicktime or other formats) or just save it  
as a PDB file for later viewing in Chimera.

Probably you will need to learn a little bit about using Chimera so  
that you can set the display (ribbons, background color, displaying  
important sidechains) how you want for the movie.

Chimera comes with a User's Guide. You can open it directly or search  
it from the Chimera Help menu.  Also clicking the Help buttons on  
dialogs will automatically open the corresponding man pages.  I will  
give some links to our Web site, but most of the same pages are  
included with your download.

Tutorial on matching structures and making nice images:

Manual page for Morph Conformations:

for MD Movie:
(see the "Recording a Movie" section)

For basic Chimera use, there is "Getting Started" tutorial:

and a more detailed version of that at our web site (not in the User's  

but if you get stuck or have trouble finding something, you can ask me  
about it.
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

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