public anyway.)
Try HADDOCK.
A.
Or I just superimpose the ligands and do some local
minimization to get kind of detailed binding model of the receptor.
Thanks a lot again,
Jerry
From: [EMAIL PROTECTED]
To: [EMAIL PROTECTED]
Subject: Re: [ccp4bb] protein-protein docking
again,
Jerry
From: [EMAIL PROTECTED]
To: [EMAIL PROTECTED]
Subject: Re: [ccp4bb] protein-protein docking programs
Date: Fri, 2 May 2008 18:11:57 +0200
Try HADDOCK.
I think the way to use it will be obvious when you read the doc/papers, but do
not hesitate to ask me if I can help more.I think its
Hi, All:
Recently we solved a complex structure between two proteins, which
indicated the interaction was kind of
rigid.
Therefore we want to test the binding mode of the receptor with another
homologous ligand(very similar structure, RMSD 2.4 angstrom).
Can somebody recommend
Hi Jerry,
I've not got a whole lot of experience with docking programs but I have
used 3D-dock (http://www.sbg.bio.ic.ac.uk/docking/) to do docking trials
between two proteins and found it to be easy to set up and use. It uses
an algorithm that mainly looks at surface complimentarity between
