ADL: regarding active site
a.kukol at herts.ac.uk
Fri Jun 12 03:53:45 PDT 2009
Use AutoDock Tools to centre the grid at a certain protein (receptor) atom in the binding site and then adjust the position of the gridbox manually, such that the centre is centered above the binding site. This works very well, but you need to do it visually.
> -----Original Message-----
> From: autodock-bounces at scripps.edu [mailto:autodock-bounces at scripps.edu] On
> Behalf Of kaustubh
> Sent: 12 June 2009 11:09
> To: autodock at scripps.edu
> Subject: ADL: regarding active site
> How do we specify a known active site.
> The grid generation does not help doing so.
> While I specify to generate grid at the ligand position, it is generated
> some where at vague position and also the docking take place some where
> else, normally at the surface of the protein.
> This is not working out which ever way I try.
> Anybody their to help?
> View this message in context: http://n2.nabble.com/regarding-active-site-
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