Sunday, 4 September 2011

identifying hinges in flexible proteins

From: Stephen Cusack
Date: 26 August 2011 10:25

We have structures of two states of a large multi-domain protein in which domain
movements of up to 30 degrees are observed. Is there a programme available which
attempts to determine rigid-body units and hinge regions in an 'unbiased' way?
thanks for your suggestions,
Stephen Cusack




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From: Matthew BOWLER


Dear Stephen,
   I find DynDom very good (http://fizz.cmp.uea.ac.uk/dyndom/) otherwise the morph server (http://molmovdb.mbb.yale.edu/molmovdb/morph/) also performs similar analysis, cheers, Matt. Matthew Bowler


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From: Martyn Winn

DynDom version 1.5 is part of the CCP4 suite.
There is an interface for it under Program List.

Although Steve Hayward appears to have a new version DynDom3D which we
don't have. No idea if it would be better for your case.

HTH
Martyn

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