[Chimera-users] RMSD between ensemble of a protein and its paralogue crystal structure

Thomas Evangelidis tevang3 at gmail.com
Tue May 15 13:52:29 PDT 2012

Dear UCSF Chimera developers,

I want to calculate the RMSD between a MD trajectory of a protein and the
crystal structure of its paralogue protein. I have looked though the
Ensemble Match and RMSD Analysis pages but these applications work for the
same proteins (correct me if I am wrong). Is there any way to provide an
alignment file to Chimera and calculate the time series of the RMSD between
the two paralogues?

Thanks in advance,



Thomas Evangelidis

PhD student

Biomedical Research Foundation, Academy of Athens

4 Soranou Ephessiou , 115 27 Athens, Greece

email: tevang at bioacademy.gr

          tevang3 at gmail.com

website: https://sites.google.com/site/thomasevangelidishomepage/
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/attachments/20120515/0e8af4d5/attachment.html>

More information about the Chimera-users mailing list