Measuring Angles is another matter, but the superposition services of
the DrugSite will align an arbitrary selection of DNA residues (the
moving molecule) onto a target residue selection on another
structure. The selection can include a duplex, or even a duplex and
some protein residues.
If you don't know which residues align, you can 'search moving PDB'
for those that are 'like' the target geometry
Transformed structures can be downloaded in PDB format, or as a Pymol
session, after putting them in the outbox
https://drugsite.msi.umn.edu/superimpose/superimpose
-- Barry
Barry C. Finzel
Professor
Medicinal Chemistry Department
College of Pharmacy
University of Minnesota
308 Harvard St S.E.
Minneapolis, MN 55455
Tel: (612) 626-5979
Fax: (612) 624-0139
finze...@umn.edu
On Apr 12, 2013, at 1:18 AM, Veerendra Kumar (Dr) wrote:
Dear CCP4 members,
Is there any program to superimpose the DNA structures? I also want
to measure the relative domain rotation angle. I tried using DynDom
but it does not work for me.
Can someone suggest a program which can output the rotation angles?
Thank you
Best Regards
Veerendra kumar
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