ADL: help virtual screening
wimnerinckx at lavabit.com
Wed Jun 3 15:47:04 PDT 2009
Here is a possibility:
The AutoDock VS tutorial files contains the python script
"split_multi_mol2_file.py" that is undocumented in the manual
UsingAutoDock4forVirtualScreening_v4.pdf. You can use it with e.g.
/split_multi_mol2_file.py -i yourmultimolfile.mol2
That will split the "yourmultimolfile.mol2" into single mol2 files,
one per molecule. Thereafter you can use the documented script for
converting them all into pdbqt files.
But I guess it is possible to do both together with a single script...
On 04 Jun 2009, at 00:36, venkat wrote:
> Hi all
> I would like to do virtual screening using autodock / vina.
> I do download the mol2 file from database, which has more than
> 1000, compounds.
> Spliting all the file to single mol2 and do the pdbqt for docking
> really time consuming.
> Is it any script or command line program that could generate pdbqs
> for all the mol2 file ?
> Or let me know is ther any efficient way to handle huge database
> without going through single
> pdb for create the input (pdbqs) for docking.
> Really appreciate if any one could give some suggestions or any
> program they could able to share.
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