Identification of PARP12 Inhibitors By Virtual Screening and Molecular Dynamics Simulations
Tahani M. Almeleebia, Shahzaib Ahamad, Irfan Ahmad, Ahmad A. Alshehri, Ali G. Alkhathami, Mohammad Y. Alshahrani, Mohammed Asiri, Amir Saeed, Jamshaid A. Siddiqui, Dharmendra Kumar Yadav, Mοhd Saeed
Abstract
Poly [adenosine diphosphate (ADP)-ribose] polymerases (PARPs) are members of a family of 17 enzymes that performs several fundamental cellular processes. Aberrant activity (mutation) in PARP12 has been linked to various diseases including inflammation, cardiovascular disease, and cancer. Herein, a large library of compounds (ZINC-FDA database) has been screened virtually to identify potential PARP12 inhibitor(s). The best compounds were selected on the basis of binding affinity scores and poses. Molecular dynamics (MD) simulation and binding free energy calculation (MMGBSA) were carried out to delineate the stability and dynamics of the resulting complexes. To this end, root means deviations, relative fluctuation, atomic gyration, compactness, covariance, residue-residue contact map, and free energy landscapes were studied. These studies have revealed that compounds ZINC03830332, ZINC03830554, and ZINC03831186 are promising agents against mutated PARP12.