3D-QSAR and Surflex Docking Studies of a Series of Alkaline Phosphatase Inhibitors

Alkaline phosphatases (APs) include the placental AP (PLAP), germ cell AP (GCAP), intestinal AP (IAP) and tissue nonspecific AP (TNAP). Over expression of TNAP in smooth muscle cells of kidney and vessels provokes the progress of such serious diseases as end-stage renal disease, idiopathic infantile arterial calcification, ankylosis, osteoarthritis and diabetes. In order to design and optimize the potent TNAP inhibitors, comparative molecular field analysis (CoMFA) and comparative molecular similarity indices analysis (CoMSIA) were used to analyze 3D structure-activity relationships (3D-QSAR) of TNAP inhibitors. The 3D-QSAR model (CoMFA with q(2) = 0.521, r(2) = 0.930; CoMSIA with q(2) = 0.529, r(2) = 0.933) had a good predictability. Surflex-dock was used to reveal the binding mode between the inhibitors and TNAP protein. CoMFA, CoMSIA and docking results provide guidance for the discovery of TNAP inhibitors. Finally, eight new compounds as potential TNAP inhibitors were designed.