Hi Rikeshewer,

Check the following web servers:

http://galaxy.seoklab.org/cgi-bin/submit.cgi?type=PEPDOCK

http://piperfpd.furmanlab.cs.huji.ac.il/

http://mobyle.rpbs.univ-paris-diderot.fr/cgi-bin/portal.py#forms::pepATTRACT

Thank you Dr. Yoshinobu Ishikawa for your suggestions.

Hi Rikeshewer,

check cluspro 2.0,

Hi again,

http://huanglab.phys.hust.edu.cn/hpepdock/

Hi, you can try with FlexPepDock Server

Here you have a good webpage with a list of Protein-protein docking and homology models!

http://www.vls3d.com/links/bioinformatics/protein-protein-interaction/protein-protein-docking

But I extremely recommend you PyDock.-

https://life.bsc.es/pid/pydock/

Regards.

Thank you all for your valuable answers.