Literature DB >> 21510834

Homology models in docking and high-throughput docking.

Claudio N Cavasotto1.   

Abstract

The use of homology models in docking-based drug discovery is already established, and provides an effective and computationally affordable alternative whenever experimental structures are not available. Recent methodological studies have confirmed and benchmarked the feasibility of using structural models in docking. However, more accurate methods are expected to be developed in the near future, especially for the model refinement stage. In this review, the latest developments in homology modeling in the context of structure-based virtual screening are presented, together with the recent success stories of homology modeling in actual docking-based drug discovery endeavours.

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Year:  2011        PMID: 21510834     DOI: 10.2174/156802611795860951

Source DB:  PubMed          Journal:  Curr Top Med Chem        ISSN: 1568-0266            Impact factor:   3.295


  11 in total

Review 1.  New insights for drug design from the X-ray crystallographic structures of G-protein-coupled receptors.

Authors:  Kenneth A Jacobson; Stefano Costanzi
Journal:  Mol Pharmacol       Date:  2012-06-13       Impact factor: 4.436

2.  Mastering tricyclic ring systems for desirable functional cannabinoid activity.

Authors:  Ravil R Petrov; Lindsay Knight; Shao-Rui Chen; Jim Wager-Miller; Steven W McDaniel; Fanny Diaz; Francis Barth; Hui-Lin Pan; Ken Mackie; Claudio N Cavasotto; Philippe Diaz
Journal:  Eur J Med Chem       Date:  2013-09-29       Impact factor: 6.514

3.  Homology modeling of a Class A GPCR in the inactive conformation: A quantitative analysis of the correlation between model/template sequence identity and model accuracy.

Authors:  Stefano Costanzi; Matthew Skorski; Alessandro Deplano; Brett Habermehl; Mary Mendoza; Keyun Wang; Michelle Biederman; Jessica Dawson; Jia Gao
Journal:  J Mol Graph Model       Date:  2016-10-04       Impact factor: 2.518

Review 4.  Modelling three-dimensional protein structures for applications in drug design.

Authors:  Tobias Schmidt; Andreas Bergner; Torsten Schwede
Journal:  Drug Discov Today       Date:  2013-11-08       Impact factor: 7.851

5.  Dasatinib-SIK2 Binding Elucidated by Homology Modeling, Molecular Docking, and Dynamics Simulations.

Authors:  Mingsong Shi; Lun Wang; Penghui Li; Jiang Liu; Lijuan Chen; Dingguo Xu
Journal:  ACS Omega       Date:  2021-04-15

Review 6.  Computer Aided Drug Design and its Application to the Development of Potential Drugs for Neurodegenerative Disorders.

Authors:  Mohammad Hassan Baig; Khurshid Ahmad; Gulam Rabbani; Mohd Danishuddin; Inho Choi
Journal:  Curr Neuropharmacol       Date:  2018       Impact factor: 7.363

7.  Virtual interactomics of proteins from biochemical standpoint.

Authors:  Jaroslav Kubrycht; Karel Sigler; Pavel Souček
Journal:  Mol Biol Int       Date:  2012-08-08

8.  The histidine-phosphocarrier protein of the phosphoenolpyruvate: sugar phosphotransferase system of Bacillus sphaericus self-associates.

Authors:  Rosa Doménech; José G Hernández-Cifre; Julio Bacarizo; Ana I Díez-Peña; Sergio Martínez-Rodríguez; Claudio N Cavasotto; José García de la Torre; Ana Cámara-Artigás; Adrián Velázquez-Campoy; José L Neira
Journal:  PLoS One       Date:  2013-07-26       Impact factor: 3.240

Review 9.  Drug Design for CNS Diseases: Polypharmacological Profiling of Compounds Using Cheminformatic, 3D-QSAR and Virtual Screening Methodologies.

Authors:  Katarina Nikolic; Lazaros Mavridis; Teodora Djikic; Jelica Vucicevic; Danica Agbaba; Kemal Yelekci; John B O Mitchell
Journal:  Front Neurosci       Date:  2016-06-10       Impact factor: 4.677

Review 10.  Structure-Based Virtual Screening: From Classical to Artificial Intelligence.

Authors:  Eduardo Habib Bechelane Maia; Letícia Cristina Assis; Tiago Alves de Oliveira; Alisson Marques da Silva; Alex Gutterres Taranto
Journal:  Front Chem       Date:  2020-04-28       Impact factor: 5.221

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