Visualizing Protein-Protein Docking Interfaces

Simon Andrews simon.andrews at bbsrc.ac.uk
Tue May 29 02:35:27 EST 2001


Herbert Axelrod wrote:
> 
> Dear Molecular Graphics Community,
>  I would be grateful if someone could recommend software
> for visualizing the docking interface between two proteins.
> We are working on the co-crystal structure of an electron
> transfer complex, and I would like to get some input on
> what programs are being used to display protein-protein
> binding interfaces.

If you are just talking about visualising the interface and not docking
two proteins together in the first place then the Deep View program can
do this (www.expasy.ch/spdbv/).  It can calculate a contact surface
between two (or more) docked structures, and will allow you to view a
variety of molecular interactions.  It also has the added bonuses of
being free, and available on pretty much whatever platform you like.

Hope this helps

Simon




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