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. 2017 May 9;45(Web Server issue):W350–W355. doi: 10.1093/nar/gkx397

Figure 2.

Figure 2.

Protein–ligand interaction energies (in kcal/mol) before and after minimization with AMMOS2 for the best docking pose with a different number of water molecules in the binding pocket for trypsin (A), cAMP-dependent protein kinase (B) and neuraminidase (C). C0 notes the energy of the docked complex before minimization, C1 to C5 correspond to the five cases of protein flexibility. The PDB ID of the proteins are given.