Dock Ligands protocol(CDOCKER,GOLD,LibDock...) need input site sphere.
I have one question about choosing radius of sphere.
When protein-ligand complex file is used to docking analysis,
I usually choose the radius of sphere such that the sphere just cover ligand, is it right?
Can I get the better result if I chose larger radius of sphere?
Could somebody provides me any suggestion to choose the radius of sphere for approximating the ligand crystal pose?