How to show that one docking is better than another with Pymol visually

I have the following docking results:

Dock_1 has better energy score than Dock_2. What I want to do is to show with Pymol that Dock_1 is better visually.

Here I use hydrogen bond, highlighted with Yellow (Dock_1) and Gray (Dock_2). But as you can see, with that I can't show that Dock_1 is clearly better. That's why I'm looking for better alternative than hydrogen bond.

• Your E looks like a ∆∆G in kJ/mol, which means that they were docked with a forcefield method. You may have among the files a per-residue split of the forces. For PyMOL, select salty, ((byres (resn ASP+GLU around 3)) and resn LYS+ARG) or ((byres (resn LYS+ARG around 3)) and resn ASP+GLU) should work for salt bridges btween canonical amino acids. Jul 8 at 13:24