ADL: Query Regarding Analysis of Autodock Vina Results

sai nitin sainitin7 at
Thu May 17 13:46:32 PDT 2012

Hi preeti,

Check this link...follow the procedure make complex of protein and ligand
and visualize in pymol

Use linux OS these commands works in this OS... then exactly see how ligand
bound to protein using pymol u can do many things as hydrogen bonds so on...


On Thu, May 17, 2012 at 11:35 AM, Preeti Singh <singhpreeti236 at>wrote:

> Respected Sir,
> I am Preeti Singh from CSIR-IICT, India. I am using your Autodock Vina for
> Virtual Screening of my Ligands.
> I am getting the Binding Affinity values given in Log file and also I am
> getting the Out.pdbqt files. But could you please tell me how should I
> analyse the interaction betwwen the protein and the ligand..? how can I
> visualise the interaction between my protein's active site and Ligand bind
> to it..?
> Please help me out.
> Awaiting your response
> Sincerely,
> *Regards*
> *Preeti Singh*
> *ACB student,*
> *IICT(CSIR), Hyderabad*
> ________________________________________________
> --- ADL: AutoDock List  --- ---


Sainitin D
PhD student
Bioinformatics Group
Biotechnology Center
Technische Universität Dresden
Tatzberg 47/49
01307 Dresden, Germany
Tel Lab:+49 (0)351 463 40060

More information about the autodock mailing list