one interpretation of your question could be answered with CCP4i using Contact http://www.ccp4.ac.uk/html/contact.html and listing contacts between say chain A and B. You can do this also with the PISA server, assuming your PDB contains the proteins in question as a complex. Manually you could pursue the question with Coot or Pymol and a piece of paper and pencil If your proteins have not been co-crystallized, you could try protein-protein docking. It would help if you specified your question a bit more.
Jürgen On Aug 10, 2012, at 10:44 AM, Runjhun Saran wrote: Hello everyone.. This is Runjhun Saran. I am new to studying inter-molecular protein interactions and the residues involved in them. Can anyone suggest me online websites or freely available softwares where we can put in the PDB files of the interacting molecules and get the residues involved in their interaction? Thanking you, Regards, Runjhun ...................... Jürgen Bosch Johns Hopkins University Bloomberg School of Public Health Department of Biochemistry & Molecular Biology Johns Hopkins Malaria Research Institute 615 North Wolfe Street, W8708 Baltimore, MD 21205 Office: +1-410-614-4742 Lab: +1-410-614-4894 Fax: +1-410-955-2926 http://lupo.jhsph.edu
