Docking-based 3D-QSAR study of HIV-1 integrase inhibitors.Eur J Med Chem. 2009 Nov; 44(11):4276-87.EJ
In this study, 3-aroyl-1,1-dioxo-1,4,2-benzodithiazine and 4-chloro-N-(4-oxopyrimidin-2-yl)-2-mercaptobenzenesulfonamide derivatives (HIV-1 integrase inhibitors) were used for CoMFA and CoMSIA to determine the substructures required for the activity of these molecules. To explore the binding mode of inhibitors, docking studies were done and docked conformation of highly active molecule was used as template for alignment. The best CoMFA model yielded the cross validation r(2)(cv)=0.728, non-cross validation r(2)(ncv)=0.934 and predictive r(2)(pred)=0.708. The best CoMSIA model yielded a cross validation r(2)(cv)=0.794, non-cross validation r(2)(ncv)=0.928 and predictive r(2)(pred)=0.59. It was found that steric (CoMFA) and hydrophobic fields (CoMSIA) have large contribution towards the inhibitory activity than the other fields. Docking and 3D-QSAR studies have provided clues to a better understanding of interaction between the inhibitors and HIV-1 integrase.