Help with two ligands docking

noontime · **Joined:** Wed Jul 06, 2011 4:58 pm **Posts:** 4

Hi,

I am trying to dock two ligands into my protein. After I docked the first ligand into my protein, I did second docking with generated pdb file. After I finished, I opened the pdb file but could only see one ligand in the protein. What was wrong?

Thanks,

noontime

bikadi · **Joined:** Wed Oct 29, 2008 2:24 pm **Posts:** 203

Hello,

most probably you have not selected the first ligand in the first step of the protein setup in the Heteroatoms box in the second docking. You must select the ligand if you want it to keep it during the docking. If it is not the problem, please share the url of the docking in question.

Best Regards,
Zsolt

noontime · **Joined:** Wed Jul 06, 2011 4:58 pm **Posts:** 4

Hi Zsolt,

Thank you very much for your quick reply. I followed your advice and solved my problem.

All the best,

Noontime