Hi Pascal,

it's not automated yet, but you can do it manually. In phenix.refine you can define "custom bonds" and "custom angles". So in your case you can just define such kind of pseudo-bonds between atom pairs that stabilize the secondary structure.

Look the manual for more informations:
http://phenix-online.org/documentation/refinement.htm

Please let me know if you have any questions!
Pavel.


On 6/4/2008 2:29 PM, Pascal EGEA wrote:
Dear All,

I am currently refining a structure at moderate resolution (~3.4A) which is mainly composed of alpha-helices . Is there a way to constrain the backbone geometry of the alpha helical regions in the model used for refinement.
Many Thanks,

Pascal F. Egea, PhD
Post Doctoral Researcher
University of California San Francisco
Department of Biophysics and Biochemistry
Robert Stroud Laboratory




_______________________________________________
phenixbb mailing list
[email protected]
http://www.phenix-online.org/mailman/listinfo/phenixbb