Ligand-guided optimization of CXCR4 homology models for virtual screening using a multiple chemotype approach.

J Comput Aided Mol Des

Centro de Estudos Farmacêuticos, Laboratório de Química Farmacêutica, Faculdade de Farmácia, Universidade de Coimbra, Pólo das Ciências da Saúde, Coimbra, Portugal.

Published: December 2010

AI Article Synopsis

  • - CXCR4 is a receptor involved in various critical biological processes, including HIV infection, cancer progression, immune cell movement, and WHIM syndrome, making it a significant target for drug development.
  • - Without an X-ray crystal structure for CXCR4, researchers used theoretical modeling and experimental data to create better ligand-receptor models that help identify how small molecules bind and act as antagonists.
  • - The study improved the binding pocket of CXCR4 to better differentiate between effective antagonists and random compounds, leading to enhanced methods for structure-based drug design and finding new CXCR4 antagonists.

Article Abstract

CXCR4 is a G-protein coupled receptor for CXCL12 that plays an important role in human immunodeficiency virus infection, cancer growth and metastasization, immune cell trafficking and WHIM syndrome. In the absence of an X-ray crystal structure, theoretical modeling of the CXCR4 receptor remains an important tool for structure-function analysis and to guide the discovery of new antagonists with potential clinical use. In this study, the combination of experimental data and molecular modeling approaches allowed the development of optimized ligand-receptor models useful for elucidation of the molecular determinants of small molecule binding and functional antagonism. The ligand-guided homology modeling approach used in this study explicitly re-shaped the CXCR4 binding pocket in order to improve discrimination between known CXCR4 antagonists and random decoys. Refinement based on multiple test-sets with small compounds from single chemotypes provided the best early enrichment performance. These results provide an important tool for structure-based drug design and virtual ligand screening of new CXCR4 antagonists.

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Source
http://dx.doi.org/10.1007/s10822-010-9393-xDOI Listing

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