Hi,

I have been docking GDP-man in its active site. The problem that I am facing is - the docking results show mixed orientation of the sugar. It is docked to the right positon but lets say 4-5 dockings show right orientation with the acceptor and the remaining show inverted. In that case can we define in the parameters so that particular portion of ligand will try to move to the defined residue?

Thanking you in advance!!

Kisun