Literature DB >> 12133718

Lead discovery using molecular docking.

Brian K Shoichet1, Susan L McGovern, Binqing Wei, John J Irwin.   

Abstract

As the structures of more and more proteins and nucleic acids become available, molecular docking is increasingly considered for lead discovery. Recent studies consider the hit-rate enhancement of docking screens and the accuracy of docking structure predictions. As more structures are determined experimentally, docking against homology-modeled targets also becomes possible for more proteins. With more docking studies being undertaken, the 'drug-likeness' and specificity of docking hits is also being examined.

Mesh:

Year:  2002        PMID: 12133718     DOI: 10.1016/s1367-5931(02)00339-3

Source DB:  PubMed          Journal:  Curr Opin Chem Biol        ISSN: 1367-5931            Impact factor:   8.822


  96 in total

1.  Identifying the binding mode of a molecular scaffold.

Authors:  Doron Chema; Doron Eren; Avner Yayon; Amiram Goldblum; Andrea Zaliani
Journal:  J Comput Aided Mol Des       Date:  2004-01       Impact factor: 3.686

2.  Validation of an empirical RNA-ligand scoring function for fast flexible docking using Ribodock.

Authors:  S David Morley; Mohammad Afshar
Journal:  J Comput Aided Mol Des       Date:  2004-03       Impact factor: 3.686

3.  BEDAM binding free energy predictions for the SAMPL4 octa-acid host challenge.

Authors:  Emilio Gallicchio; Haoyuan Chen; He Chen; Michael Fitzgerald; Yang Gao; Peng He; Malathi Kalyanikar; Chuan Kao; Beidi Lu; Yijie Niu; Manasi Pethe; Jie Zhu; Ronald M Levy
Journal:  J Comput Aided Mol Des       Date:  2015-03-01       Impact factor: 3.686

Review 4.  Virtual screening of chemical libraries.

Authors:  Brian K Shoichet
Journal:  Nature       Date:  2004-12-16       Impact factor: 49.962

5.  ZINC--a free database of commercially available compounds for virtual screening.

Authors:  John J Irwin; Brian K Shoichet
Journal:  J Chem Inf Model       Date:  2005 Jan-Feb       Impact factor: 4.956

6.  ENPDA: an evolutionary structure-based de novo peptide design algorithm.

Authors:  Ignasi Belda; Sergio Madurga; Xavier Llorà; Marc Martinell; Teresa Tarragó; Mireia G Piqueras; Ernesto Nicolás; Ernest Giralt
Journal:  J Comput Aided Mol Des       Date:  2005-11-03       Impact factor: 3.686

7.  Efficient molecular docking of NMR structures: application to HIV-1 protease.

Authors:  Sheng-You Huang; Xiaoqin Zou
Journal:  Protein Sci       Date:  2006-11-22       Impact factor: 6.725

8.  Ultrafast de novo docking combining pharmacophores and combinatorics.

Authors:  Marcus Gastreich; Markus Lilienthal; Hans Briem; Holger Claussen
Journal:  J Comput Aided Mol Des       Date:  2007-01-30       Impact factor: 3.686

Review 9.  Structural biology and bioinformatics in drug design: opportunities and challenges for target identification and lead discovery.

Authors:  Tom L Blundell; Bancinyane L Sibanda; Rinaldo Wander Montalvão; Suzanne Brewerton; Vijayalakshmi Chelliah; Catherine L Worth; Nicholas J Harmer; Owen Davies; David Burke
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2006-03-29       Impact factor: 6.237

10.  Inclusion of solvation and entropy in the knowledge-based scoring function for protein-ligand interactions.

Authors:  Sheng-You Huang; Xiaoqin Zou
Journal:  J Chem Inf Model       Date:  2010-02-22       Impact factor: 4.956

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