Sentra, a Database of Signal Transduction Proteins

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2001 Dec 26

PMID 11752334

Citations 10

Authors

Natalia Maltsev

E Marland

G X Yu

S Bhatnagar

R Lusk

Affiliations

Soon will be listed here.

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.

Citing Articles

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

Rachwal K, Lipa P, Wojda I, Vinardell J, Janczarek M Genes (Basel). 2017; 8(12).

PMID: 29244767 PMC: 5748706. DOI: 10.3390/genes8120388.

A framework for classification of prokaryotic protein kinases.

Tyagi N, Anamika K, Srinivasan N PLoS One. 2010; 5(5):e10608.

PMID: 20520783 PMC: 2877116. DOI: 10.1371/journal.pone.0010608.

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

Barakat M, Ortet P, Jourlin-Castelli C, Ansaldi M, Mejean V, Whitworth D BMC Genomics. 2009; 10:315.

PMID: 19604365 PMC: 2716373. DOI: 10.1186/1471-2164-10-315.

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

DSouza M, Glass E, Syed M, Zhang Y, Rodriguez A, Maltsev N Nucleic Acids Res. 2006; 35(Database issue):D271-3.

PMID: 17135204 PMC: 1751548. DOI: 10.1093/nar/gkl949.

MiST: a microbial signal transduction database.

Ulrich L, Zhulin I Nucleic Acids Res. 2006; 35(Database issue):D386-90.

PMID: 17135192 PMC: 1747179. DOI: 10.1093/nar/gkl932.

References

Bairoch A, Apweiler R . The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. Nucleic Acids Res. 1999; 28(1):45-8. PMC: 102476. DOI: 10.1093/nar/28.1.45. View

Henikoff J, GREENE E, Pietrokovski S, Henikoff S . Increased coverage of protein families with the blocks database servers. Nucleic Acids Res. 1999; 28(1):228-30. PMC: 102407. DOI: 10.1093/nar/28.1.228. View

Bateman A, Birney E, Durbin R, Eddy S, Howe K, Sonnhammer E . The Pfam protein families database. Nucleic Acids Res. 1999; 28(1):263-6. PMC: 102420. DOI: 10.1093/nar/28.1.263. View

Altschul S, Gish W, Miller W, Myers E, Lipman D . Basic local alignment search tool. J Mol Biol. 1990; 215(3):403-10. DOI: 10.1016/S0022-2836(05)80360-2. View

Aravind L, Ponting C . The cytoplasmic helical linker domain of receptor histidine kinase and methyl-accepting proteins is common to many prokaryotic signalling proteins. FEMS Microbiol Lett. 1999; 176(1):111-6. DOI: 10.1111/j.1574-6968.1999.tb13650.x. View