In silico exploration of potential PRKG1 Inhibitors: A comprehensive study using MTIOPEN Screening, molecular Docking, and MD simulation

Abstract

The enzyme protein kinase G1 (PRKG1) plays a crucial role in cellular signaling pathways such as smooth muscle relaxation, neuronal signaling, and platelet aggregation. The dysregulation of PRKG1 leads to different diseases, making it a promising drug target. In this study, we employed a comprehensive in silico strategy to explore potential inhibitors of PRKG1 by using the crystal structure of the PRKG1 protein. The active site of PRKG1 protein was parameterized within a three-dimensional grid box. The 100 hit compounds identified during virtual screening were docked to the prepared PRKG1 receptor to predict binding affinities. The top ten compounds were chosen, and their binding affinities ranged from −10.734 to −10.398 kcal/mol. Finally, a 200 ns long simulation was run to confirm the stability of the protein–ligand complexes at the binding sites of the two top compounds against the PRKG1 receptor. All these findings suggest that the selected compounds can serve as potential compounds to inhibit the PRKG1 function in biological assays.

Keywords

• Protein Kinase G1 (PRKG1)
• Cellular Signaling Pathways
• Virtual Screening
• Inhibitors
• Molecular Dynamics (MD) Simulation