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[ccp4bb]: DynDom webserver and Database
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As some of you may know the program DynDom, available from CCP4,
analyses the conformational difference between two protein
structures in terms of domains, hinge axes, and bending regions.
Now you can run DynDom at a webserver to be found at:
You can upload files in PDB format containing recently solved structures
for analysis. Results will be presented at your browser. You can
also download a RasMol script file for viewing
locally. If files are uploaded then rest assured
that all files and results will be deleted from the server
after you have finished.
At present the program only works on single chains with
all backbone atoms present. Equivalent residues between
two chains are determined by sequence alignment and the
chains must have at least 40% sequence identity for
the analysis to proceed.
A database of previous successful
DynDom runs from the current
CDROM release of the PDB is also available to view
from the site. You can help us populate this database
by running DynDom on structures from the PDB that you
think reveal a domain motion.
Steven Hayward and Richard Lee.
Dr Steven Hayward
School of Information Systems and School of Biological Sciences
University of East Anglia