ADL: convert planner pdb file to 3d

Daan van Aalten vdava at davapc1.bioch.dundee.ac.uk
Sat Feb 19 05:30:06 PST 2005


Hi Yang

Please let us know what is wrong with the PRODRG-generated coordinates.

Daan
On Sat, 19 Feb 2005 yangyc at bii-sg.org wrote:

> dear all,
>
> i have a question which is not really about autodock...
>
> i downloaded some small molecule pdb files from chemIDplus from NIH, but
> found that all the pdb files are planner. To be detailed, the z-axis
> values are all 0.
>
> i tried to use the Dundee PRODRG2 Server to convert the planner pdb file
> into 3D, but not sure if the converted results are reliable. so if anyone
> have tried any other softwares for such 2D-to-3D convertion of chemical
> structures, could you please tell me about that?
>
> thanks a lot!
>
> cheers,
>
> yuchen
> ________________________________________________
> --- ADL: AutoDock List  --- http://www.scripps.edu/pub/olson-web/doc/autodock/ ---
>


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Dr. Daan van Aalten                    Wellcome Trust Senior Fellow / Reader
Wellcome Trust Biocentre, Dow Street   TEL: ++ 44 1382 344979
Div. of Biol.Chem. & Mol.Microbiology  FAX: ++ 44 1382 345764
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