Literature DB >> 16524830

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

Tom L Blundell1, Bancinyane L Sibanda, Rinaldo Wander Montalvão, Suzanne Brewerton, Vijayalakshmi Chelliah, Catherine L Worth, Nicholas J Harmer, Owen Davies, David Burke.   

Abstract

Impressive progress in genome sequencing, protein expression and high-throughput crystallography and NMR has radically transformed the opportunities to use protein three-dimensional structures to accelerate drug discovery, but the quantity and complexity of the data have ensured a central place for informatics. Structural biology and bioinformatics have assisted in lead optimization and target identification where they have well established roles; they can now contribute to lead discovery, exploiting high-throughput methods of structure determination that provide powerful approaches to screening of fragment binding.

Mesh:

Year:  2006        PMID: 16524830      PMCID: PMC1609333          DOI: 10.1098/rstb.2005.1800

Source DB:  PubMed          Journal:  Philos Trans R Soc Lond B Biol Sci        ISSN: 0962-8436            Impact factor:   6.237


  77 in total

1.  Three-dimensional structure analysis of PROSITE patterns.

Authors:  A Kasuya; J M Thornton
Journal:  J Mol Biol       Date:  1999-03-12       Impact factor: 5.469

Review 2.  Fragment-based lead discovery.

Authors:  David C Rees; Miles Congreve; Christopher W Murray; Robin Carr
Journal:  Nat Rev Drug Discov       Date:  2004-08       Impact factor: 84.694

3.  Distinguishing structural and functional restraints in evolution in order to identify interaction sites.

Authors:  Vijayalakshmi Chelliah; Lan Chen; Tom L Blundell; Simon C Lovell
Journal:  J Mol Biol       Date:  2004-10-01       Impact factor: 5.469

Review 4.  Comprehensive survey of combinatorial library synthesis: 2003.

Authors:  Roland E Dolle
Journal:  J Comb Chem       Date:  2004 Sep-Oct

Review 5.  Virtual screening in lead discovery and optimization.

Authors:  Ajay N Jain
Journal:  Curr Opin Drug Discov Devel       Date:  2004-07

6.  Science, art and drug discovery: a personal perspective.

Authors:  S F Campbell
Journal:  Clin Sci (Lond)       Date:  2000-10       Impact factor: 6.124

7.  The PROSITE database, its status in 1999.

Authors:  K Hofmann; P Bucher; L Falquet; A Bairoch
Journal:  Nucleic Acids Res       Date:  1999-01-01       Impact factor: 16.971

8.  Sequence and structure conservation in a protein core.

Authors:  M A Rodionov; T L Blundell
Journal:  Proteins       Date:  1998-11-15

9.  Protein clefts in molecular recognition and function.

Authors:  R A Laskowski; N M Luscombe; M B Swindells; J M Thornton
Journal:  Protein Sci       Date:  1996-12       Impact factor: 6.725

10.  A 3D-1D substitution matrix for protein fold recognition that includes predicted secondary structure of the sequence.

Authors:  D W Rice; D Eisenberg
Journal:  J Mol Biol       Date:  1997-04-11       Impact factor: 5.469

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  44 in total

1.  Biocrystallography: past, present, future.

Authors:  Richard Giegé; Claude Sauter
Journal:  HFSP J       Date:  2010-04-22

2.  G-LoSA: An efficient computational tool for local structure-centric biological studies and drug design.

Authors:  Hui Sun Lee; Wonpil Im
Journal:  Protein Sci       Date:  2016-03-06       Impact factor: 6.725

Review 3.  The proteome: structure, function and evolution.

Authors:  Keiran Fleming; Lawrence A Kelley; Suhail A Islam; Robert M MacCallum; Arne Muller; Florencio Pazos; Michael J E Sternberg
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2006-03-29       Impact factor: 6.237

4.  Introduction. Bioinformatics: from molecules to systems.

Authors:  David T Jones; Michael J E Sternberg; Janet M Thornton
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2006-03-29       Impact factor: 6.237

5.  A new prediction strategy for long local protein structures using an original description.

Authors:  Aurélie Bornot; Catherine Etchebest; Alexandre G de Brevern
Journal:  Proteins       Date:  2009-08-15

6.  Comparison of human solute carriers.

Authors:  Avner Schlessinger; Pär Matsson; James E Shima; Ursula Pieper; Sook Wah Yee; Libusha Kelly; Leonard Apeltsin; Robert M Stroud; Thomas E Ferrin; Kathleen M Giacomini; Andrej Sali
Journal:  Protein Sci       Date:  2010-03       Impact factor: 6.725

7.  Predicting protein flexibility through the prediction of local structures.

Authors:  Aurélie Bornot; Catherine Etchebest; Alexandre G de Brevern
Journal:  Proteins       Date:  2010-12-06

Review 8.  Application of NMR and molecular docking in structure-based drug discovery.

Authors:  Jaime L Stark; Robert Powers
Journal:  Top Curr Chem       Date:  2012

9.  Binding-site assessment by virtual fragment screening.

Authors:  Niu Huang; Matthew P Jacobson
Journal:  PLoS One       Date:  2010-04-09       Impact factor: 3.240

10.  PCRPi: Presaging Critical Residues in Protein interfaces, a new computational tool to chart hot spots in protein interfaces.

Authors:  Salam A Assi; Tomoyuki Tanaka; Terence H Rabbitts; Narcis Fernandez-Fuentes
Journal:  Nucleic Acids Res       Date:  2009-12-11       Impact factor: 16.971

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