Good afternoon.
To whom it may concern.
I am attempting to identify the residues with which a compound (A) is interacting with a target protein (B). I opened both pdb files in ChimeraX, I selected the compound and did as follows: Tools > Structure Analysis > Contacts (selected output info to log).
The results which I get are the contacts inside the same protein (prot(B) with prot(B)), instead of compound(A) with protein(B).
I have tried selecting only the target protein, selecting both, creating a new pdb file with the comp and the compound together, but nothing works, I still can not get to know which residues from the compound are contacting my target prot.
How could I solve this?
Thank you
Best,
Mario