Literature DB >> 19620987

Missing in action: enzyme functional annotations in biological databases.

Nicholas Furnham1, John S Garavelli, Rolf Apweiler, Janet M Thornton.   

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Year:  2009        PMID： 19620987     DOI： 10.1038/nchembio0809-521

Source DB:  PubMed          Journal:  Nat Chem Biol        ISSN： 1552-4450            Impact factor:   15.040


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  28 in total

1.  KEGG: kyoto encyclopedia of genes and genomes.

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Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

Review 2.  Enzymes with extra talents: moonlighting functions and catalytic promiscuity.

Authors:  Shelley D Copley
Journal:  Curr Opin Chem Biol       Date:  2003-04       Impact factor: 8.822

3.  The fiction of function.

Authors:  Jeff Shrager
Journal:  Bioinformatics       Date:  2003-10-12       Impact factor: 6.937

4.  Molecular docking for substrate identification: the short-chain dehydrogenases/reductases.

Authors:  Angelo D Favia; Irene Nobeli; Fabian Glaser; Janet M Thornton
Journal:  J Mol Biol       Date:  2007-11-01       Impact factor: 5.469

Review 5.  Predicting protein function from sequence and structure.

Authors:  David Lee; Oliver Redfern; Christine Orengo
Journal:  Nat Rev Mol Cell Biol       Date:  2007-12       Impact factor: 94.444

6.  A wiki for the life sciences where authorship matters.

Authors:  Robert Hoffmann
Journal:  Nat Genet       Date:  2008-09       Impact factor: 38.330

7.  EzCatDB: the Enzyme Catalytic-mechanism Database.

Authors:  Nozomi Nagano
Journal:  Nucleic Acids Res       Date:  2005-01-01       Impact factor: 16.971

8.  Evolutionarily conserved substrate substructures for automated annotation of enzyme superfamilies.

Authors:  Ranyee A Chiang; Andrej Sali; Patricia C Babbitt
Journal:  PLoS Comput Biol       Date:  2008-08-01       Impact factor: 4.475

9.  The Universal Protein Resource (UniProt) 2009.

Authors: 
Journal:  Nucleic Acids Res       Date:  2008-10-04       Impact factor: 16.971

10.  Retrieving sequences of enzymes experimentally characterized but erroneously annotated : the case of the putrescine carbamoyltransferase.

Authors:  Daniil G Naumoff; Ying Xu; Nicolas Glansdorff; Bernard Labedan
Journal:  BMC Genomics       Date:  2004-08-02       Impact factor: 3.969
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  23 in total

1.  SHARP: genome-scale identification of gene-protein-reaction associations in cyanobacteria.

Authors:  S Krishnakumar; Dilip A Durai; Pramod P Wangikar; Ganesh A Viswanathan
Journal:  Photosynth Res       Date:  2013-08-24       Impact factor: 3.573

2.  Evolution of cyclic amidohydrolases: a highly diversified superfamily.

Authors:  Matthieu Barba; Nicolas Glansdorff; Bernard Labedan
Journal:  J Mol Evol       Date:  2013-08-27       Impact factor: 2.395

3.  Revealing the hidden functional diversity of an enzyme family.

Authors:  Karine Bastard; Adam Alexander Thil Smith; Carine Vergne-Vaxelaire; Alain Perret; Anne Zaparucha; Raquel De Melo-Minardi; Aline Mariage; Magali Boutard; Adrien Debard; Christophe Lechaplais; Christine Pelle; Virginie Pellouin; Nadia Perchat; Jean-Louis Petit; Annett Kreimeyer; Claudine Medigue; Jean Weissenbach; François Artiguenave; Véronique De Berardinis; David Vallenet; Marcel Salanoubat
Journal:  Nat Chem Biol       Date:  2013-11-17       Impact factor: 15.040

4.  EnzymeDetector: an integrated enzyme function prediction tool and database.

Authors:  Susanne Quester; Dietmar Schomburg
Journal:  BMC Bioinformatics       Date:  2011-09-23       Impact factor: 3.169

5.  Growth of bacteria on 3-nitropropionic acid as a sole source of carbon, nitrogen, and energy.

Authors:  Shirley F Nishino; Kwanghee A Shin; Rayford B Payne; Jim C Spain
Journal:  Appl Environ Microbiol       Date:  2010-04-09       Impact factor: 4.792

Review 6.  Protein function prediction: towards integration of similarity metrics.

Authors:  Serkan Erdin; Andreas Martin Lisewski; Olivier Lichtarge
Journal:  Curr Opin Struct Biol       Date:  2011-02-24       Impact factor: 6.809

7.  Parallel evolution of non-homologous isofunctional enzymes in methionine biosynthesis.

Authors:  Karine Bastard; Alain Perret; Aline Mariage; Thomas Bessonnet; Agnès Pinet-Turpault; Jean-Louis Petit; Ekaterina Darii; Pascal Bazire; Carine Vergne-Vaxelaire; Clémence Brewee; Adrien Debard; Virginie Pellouin; Marielle Besnard-Gonnet; François Artiguenave; Claudine Médigue; David Vallenet; Antoine Danchin; Anne Zaparucha; Jean Weissenbach; Marcel Salanoubat; Véronique de Berardinis
Journal:  Nat Chem Biol       Date:  2017-06-05       Impact factor: 15.040

8.  Prototypes of elementary functional loops unravel evolutionary connections between protein functions.

Authors:  Alexander Goncearenco; Igor N Berezovsky
Journal:  Bioinformatics       Date:  2010-09-15       Impact factor: 6.937

9.  A Global Survey of ATPase Activity in Plasmodium falciparum Asexual Blood Stages and Gametocytes.

Authors:  Corrie Ortega; Andrew Frando; Bobbie-Jo Webb-Robertson; Lindsey N Anderson; Neil Fleck; Erika L Flannery; Matthew Fishbaugher; Taylor A Murphree; Joshua R Hansen; Richard D Smith; Stefan H I Kappe; Aaron T Wright; Christoph Grundner
Journal:  Mol Cell Proteomics       Date:  2017-10-27       Impact factor: 5.911

Review 10.  Enzyme informatics.

Authors:  Rosanna G Alderson; Luna De Ferrari; Lazaros Mavridis; James L McDonagh; John B O Mitchell; Neetika Nath
Journal:  Curr Top Med Chem       Date:  2012       Impact factor: 3.295
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