How can i put 2 proteins as ligands (they naturally inhibit the main protein ) for pharmacophore modeling in schrodinger ?

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Martin Klvana

So the two proteins bind to a third protein? Can't you do the pharmacophore modeling separately for each pair?

Faeqe Hosseini Nasab

yes they both inhibit the third one . i did it but the problem is that the Schrodinger`s error is that the inhibitors are not one ligand , even after i prepare inhibitors with Schrodinger

Tanushree Das

You can try complexing the two inhibitor proteins with one segment name.