Literature DB >> 12714057

Definitions of enzyme function for the structural genomics era.

Patricia C Babbitt1.   

Abstract

Questions are being asked about how enzyme function is described at the molecular level and the strengths and weaknesses of the EC system for this purpose. A new approach to describing enzyme function has been proposed that might improve our capabilities for functional inference for members of enzyme superfamilies.

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Year:  2003        PMID： 12714057     DOI： 10.1016/s1367-5931(03)00028-0

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


  26 in total

1.  Detailed analysis of function divergence in a large and diverse domain superfamily: toward a refined protocol of function classification.

Authors:  Benoit H Dessailly; Oliver C Redfern; Alison L Cuff; Christine A Orengo
Journal:  Structure       Date:  2010-11-10       Impact factor: 5.006

2.  EFICAz: a comprehensive approach for accurate genome-scale enzyme function inference.

Authors:  Weidong Tian; Adrian K Arakaki; Jeffrey Skolnick
Journal:  Nucleic Acids Res       Date:  2004-12-01       Impact factor: 16.971

3.  Localization of binding sites in protein structures by optimization of a composite scoring function.

Authors:  Andrea Rossi; Marc A Marti-Renom; Andrej Sali
Journal:  Protein Sci       Date:  2006-09-08       Impact factor: 6.725

4.  Evolutionary constraints on structural similarity in orthologs and paralogs.

Authors:  Mark E Peterson; Feng Chen; Jeffery G Saven; David S Roos; Patricia C Babbitt; Andrej Sali
Journal:  Protein Sci       Date:  2009-06       Impact factor: 6.725

Review 5.  FINDSITE: a combined evolution/structure-based approach to protein function prediction.

Authors:  Jeffrey Skolnick; Michal Brylinski
Journal:  Brief Bioinform       Date:  2009-03-26       Impact factor: 11.622

6.  Identification of family-specific residue packing motifs and their use for structure-based protein function prediction: I. Method development.

Authors:  Deepak Bandyopadhyay; Jun Huan; Jan Prins; Jack Snoeyink; Wei Wang; Alexander Tropsha
Journal:  J Comput Aided Mol Des       Date:  2009-06-20       Impact factor: 3.686

Review 7.  RidA Proteins Protect against Metabolic Damage by Reactive Intermediates.

Authors:  Jessica L Irons; Kelsey Hodge-Hanson; Diana M Downs
Journal:  Microbiol Mol Biol Rev       Date:  2020-07-15       Impact factor: 11.056

Review 8.  Toward mechanistic classification of enzyme functions.

Authors:  Daniel E Almonacid; Patricia C Babbitt
Journal:  Curr Opin Chem Biol       Date:  2011-04-12       Impact factor: 8.822

9.  From cyclohydrolase to oxidoreductase: discovery of nitrile reductase activity in a common fold.

Authors:  Steven G Van Lanen; John S Reader; Manal A Swairjo; Valérie de Crécy-Lagard; Bobby Lee; Dirk Iwata-Reuyl
Journal:  Proc Natl Acad Sci U S A       Date:  2005-03-14       Impact factor: 11.205

10.  Quantitative comparison of catalytic mechanisms and overall reactions in convergently evolved enzymes: implications for classification of enzyme function.

Authors:  Daniel E Almonacid; Emmanuel R Yera; John B O Mitchell; Patricia C Babbitt
Journal:  PLoS Comput Biol       Date:  2010-03-12       Impact factor: 4.475
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