What's the best way to analyze the results?Up to table of contents
This FAQ applies to: AutoDock 3, AutoDock 4
One way is to sort the compounds by lowest energy first. An alternative is to sort the compounds by the lowest energy in the largest cluster (typically clustering using an RMSD tolerance of 2 Angstroms).
Follow up the sorting by using ADT to inspect visually the chemical complementarity of the binding modes.