User Input

The user inputs required for a Ranker job are shown below.

- Since Ranker performs docking, it is necessary to have a ligand bound at the target binding site in the .pdb file supplied. Once the user specifies the name of the ligand (“Residue”) and protein chain, Ranker uses this information to define the binding pocket for docking.

- Ranker currently works correctly only for binding sites made up of residues from a single protein chain only. We will shortly add the capability to handle binding pockets consisting of residues from multiple chains/proteins.