This is a test version of Biostars. For the public version, visit https://www.biostars.org.
protein-protein docking

I have docked two proteins using ClusPro. I want to see its interacting residues and interactions. I tried to use pdbsum for the analysis, but it considers both the proteins as a single chain and does not show any interaction. how can I analyze the interaction and find out interacting residues?

protein-protein interaction docking
• 1,708 views • link
written by manaswiniparija3 • manaswiniparija3

1 answer

If the two proteins have the same chain letter, you will most likely need to change it. I think PDBsum is still your best choice when you have a correct PDB file. To calculate the contact interface area and energy, I suggest PISA:

https://www.ebi.ac.uk/pdbe/pisa/

Again, two different chain letters are needed.

• 0 views • link
written by Mensur Dlakic Mensur Dlakic

Log in to answer this question.

More posts like this