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. 2022 Dec 7;39(1):btac789. doi: 10.1093/bioinformatics/btac789

Table 1.

Binding affinities (−9.5 kcal/mol) from molecular docking using the 6W63 receptor and free energies of binding predicted by MM-GBSA that were lower than that of X77 in a 10 ns MD simulation

Ligand VinaAffinity GBSA 0.4ns GBSA 10ns
ZINC000036707984 −9.7 −48.6984 −49.8774
ZINC000034758692 −9.6 −42.7249 −44.7871
ZINC000097480050 −9.6 −43.0136 −44.2139
ZINC000096114211 −9.6 −43.2604 −44.1934
ZINC000096115318 −9.9 −36.6151 −43.1172
ZINC000035424775 −9.6 −37.8856 −42.7367
ZINC000230129735 −10.3 −43.2664 −42.4759
ZINC000016020583 −10.4 −38.5203 −41.8849
ZINC000018266226 −10.4 −38.262 −41.6461
ZINC000096115318 −9.9 −44.3969 −41.6005
ZINC000035851646 −9.5 −31.9911 −41.5783
ZINC000032205245 −9.7 −38.9963 −40.9523
ZINC000016001299 −10.1 −36.6569 −40.5696
X77 −8.3 −41.5873 −39.9814