Bioinformatics Asked on December 20, 2020
I have been calculating the binding Affinity between a Ligand and a Protein using both AutoDock Vina and AutoDock tools but the binding affinity estimates obtained from the 2 molecular docking softwares are very dissimilar. For instance, in the example below the binding affinity estimated by AutoDock Vina is -12.6 but for the same Ligand and Protein the Binding Affinity according to AutoDock Tools is +158.0. Why would there be such a massive difference.
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