RH Logo

4

WScore: A Flexible and Accurate Treatment of Explicit Water Molecules in Ligand–Receptor Docking

Published:

Apr 22, 2016

Paper Title:

WScore: A Flexible and Accurate Treatment of Explicit Water Molecules in Ligand–Receptor Docking

4
Authors & Stats

Abstract

We have developed a new methodology for protein–ligand docking and scoring, WScore, incorporating a flexible description of explicit water molecules. The locations and thermodynamics of the waters are derived from a WaterMap molecular dynamics simulation. The water structure is employed to provide an atomic level description of ligand and protein desolvation. WScore also contains a detailed model for localized ligand and protein strain energy and integrates an MM-GBSA scoring component with these terms to assess delocalized strain of the complex. Ensemble docking is used to take into account induced fit effects on the receptor conformation, and protein reorganization free energies are assigned via fitting to experimental data. The performance of the method is evaluated for pose prediction, rank ordering of self-docked complexes, and enrichment in virtual screening, using a large data set of PDB complexes and compared with the Glide SP and Glide XP models; significant improvements are obtained.
Comments

Table of contents

Paper PDF

Empty State
This academic paper hasn't been uploaded yet
View the paper now by clicking the link below or upload the PDF
or