Abstract

The process for drug discovery and development is challenging, time consuming and expensive. Computer-aided drug discovery (CADD) tools can act as a virtual shortcut, assisting in the expedition of this long process and potentially reducing the cost of research and development. Today CADD has become an effective and indispensable tool in therapeutic development. The human genome project has made available a substantial amount of sequence data that can be used in various drug discovery projects. Additionally, increasing knowledge of biological structures, as well as increasing computer power have made it possible to use computational methods effectively in various phases of the drug discovery and development pipeline. The importance of in silico tools is greater than ever before and has advanced pharmaceutical research. Here we present an overview of computational methods used in different facets of drug discovery and highlight some of the recent successes. In this review, both structure-based and ligand-based drug discovery methods are discussed. Advances in virtual high-throughput screening, protein structure prediction methods, protein–ligand docking, pharmacophore modeling and QSAR techniques are reviewed.

Highlights

  • Bringing a pharmaceutical drug to the market is a long term process that costs billions of dollars

  • Replica-exchange MC and optimized knowledge-based force field Fragment assembly, simulated annealing Fragment assembly User provided distance restraints from sparse experimental data Calculate evolutionary variation by co-evolved residue pairs server server/download server/download server server server server server/download server/download server server/download server/download server server use homology modeling to predict the structure of a protein sequence that has over 40% identity to a protein of a known threedimensional structure

  • Homology modeling is commonly applied in structure-based drug discovery to predict target structures that are important in diseases [40,41]

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Summary

Computational methods in drug discovery

Address: Department of Chemistry and Biochemistry, Ohio State University, Columbus, OH 43210, USA. Received: 01 September 2016 Accepted: 22 November 2016 Published: 12 December 2016. This article is part of the Thematic Series "Chemical biology"

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