Literature DB >> 11752334

Sentra, a database of signal transduction proteins.

Natalia Maltsev1, E Marland, G X Yu, S Bhatnagar, R Lusk.   

Abstract

Sentra (http://www-wit.mcs.anl.gov/sentra) is a database of signal transduction proteins with the emphasis on microbial signal transduction. The database was updated to include classes of signal transduction systems modulated by either phosphorylation or methylation reactions such as PAS proteins and serine/threonine kinases, as well as the classical two-component histidine kinases and methyl-accepting chemotaxis proteins. Currently, Sentra contains signal transduction proteins from 43 completely sequenced prokaryotic genomes as well as sequences from SWISS-PROT and TrEMBL. Signal transduction proteins are annotated with information describing conserved domains, paralogous and orthologous sequences, and conserved chromosomal gene clusters. The newly developed user interface supports flexible search capabilities and extensive visualization of the data.

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Year:  2002        PMID： 11752334      PMCID： PMC99115          DOI： 10.1093/nar/30.1.349

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  10 in total

1.  Increased coverage of protein families with the blocks database servers.

Authors:  J G Henikoff; E A Greene; S Pietrokovski; S Henikoff
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  The Pfam protein families database.

Authors:  A Bateman; E Birney; R Durbin; S R Eddy; K L Howe; E L Sonnhammer
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

3.  Blocks+: a non-redundant database of protein alignment blocks derived from multiple compilations.

Authors:  S Henikoff; J G Henikoff; S Pietrokovski
Journal:  Bioinformatics       Date:  1999-06       Impact factor: 6.937

4.  The cytoplasmic helical linker domain of receptor histidine kinase and methyl-accepting proteins is common to many prokaryotic signalling proteins.

Authors:  L Aravind; C P Ponting
Journal:  FEMS Microbiol Lett       Date:  1999-07-01       Impact factor: 2.742

5.  The use of gene clusters to infer functional coupling.

Authors:  R Overbeek; M Fonstein; M D'Souza; G D Pusch; N Maltsev
Journal:  Proc Natl Acad Sci U S A       Date:  1999-03-16       Impact factor: 11.205

Review 6.  PAS domains: internal sensors of oxygen, redox potential, and light.

Authors:  B L Taylor; I B Zhulin
Journal:  Microbiol Mol Biol Rev       Date:  1999-06       Impact factor: 11.056

7.  Basic local alignment search tool.

Authors:  S F Altschul; W Gish; W Miller; E W Myers; D J Lipman
Journal:  J Mol Biol       Date:  1990-10-05       Impact factor: 5.469

8.  The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000.

Authors:  A Bairoch; R Apweiler
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

9.  SOSUI: classification and secondary structure prediction system for membrane proteins.

Authors:  T Hirokawa; S Boon-Chieng; S Mitaku
Journal:  Bioinformatics       Date:  1998       Impact factor: 6.937

10.  GenBank.

Authors:  D A Benson; M S Boguski; D J Lipman; J Ostell; B F Ouellette
Journal:  Nucleic Acids Res       Date:  1998-01-01       Impact factor: 16.971
  10 in total
  10 in total

1.  Amino acids determining enzyme-substrate specificity in prokaryotic and eukaryotic protein kinases.

Authors:  Lewyn Li; Eugene I Shakhnovich; Leonid A Mirny
Journal:  Proc Natl Acad Sci U S A       Date:  2003-04-04       Impact factor: 11.205

2.  STCDB: Signal Transduction Classification Database.

Authors:  Ming Chen; Susana Lin; Ralf Hofestaedt
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

3.  GNARE: automated system for high-throughput genome analysis with grid computational backend.

Authors:  Dinanath Sulakhe; Alex Rodriguez; Mark D'Souza; Michael Wilde; Veronika Nefedova; Ian Foster; Natalia Maltsev
Journal:  J Clin Monit Comput       Date:  2005-10       Impact factor: 2.502

4.  Structural classification of bacterial response regulators: diversity of output domains and domain combinations.

Authors:  Michael Y Galperin
Journal:  J Bacteriol       Date:  2006-06       Impact factor: 3.490

5.  A framework for classification of prokaryotic protein kinases.

Authors:  Nidhi Tyagi; Krishanpal Anamika; Narayanaswamy Srinivasan
Journal:  PLoS One       Date:  2010-05-26       Impact factor: 3.240

6.  MiST: a microbial signal transduction database.

Authors:  Luke E Ulrich; Igor B Zhulin
Journal:  Nucleic Acids Res       Date:  2006-11-28       Impact factor: 16.971

7.  Sentra: a database of signal transduction proteins for comparative genome analysis.

Authors:  Mark D'Souza; Elizabeth M Glass; Mustafa H Syed; Yi Zhang; Alexis Rodriguez; Natalia Maltsev; Michael Y Galperin
Journal:  Nucleic Acids Res       Date:  2006-11-29       Impact factor: 16.971

Review 8.  A census of membrane-bound and intracellular signal transduction proteins in bacteria: bacterial IQ, extroverts and introverts.

Authors:  Michael Y Galperin
Journal:  BMC Microbiol       Date:  2005-06-14       Impact factor: 3.605

9.  P2CS: a two-component system resource for prokaryotic signal transduction research.

Authors:  Mohamed Barakat; Philippe Ortet; Cécile Jourlin-Castelli; Mireille Ansaldi; Vincent Méjean; David E Whitworth
Journal:  BMC Genomics       Date:  2009-07-15       Impact factor: 3.969

10.  Regulatory Elements Located in the Upstream Region of the Rhizobium leguminosarum rosR Global Regulator Are Essential for Its Transcription and mRNA Stability.

Authors:  Kamila Rachwał; Paulina Lipa; Iwona Wojda; José-María Vinardell; Monika Janczarek
Journal:  Genes (Basel)       Date:  2017-12-15       Impact factor: 4.096
  10 in total

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