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Escherichia coli K-12 substr. MG1655 Polypeptide: DNA-binding transcriptional regulator



Gene: yciT Accession Numbers: G6638 (EcoCyc), b1284, ECK1279

Synonyms: deoT

Regulation Summary Diagram: ?

Summary:
DeoT belongs to the DeoR family of transcriptional regulators and acts as a global regulator [ElgrablyWeiss06].

DeoT: "deoR-type" [ElgrablyWeiss06]

Gene Citations: [Maciag11]

Locations: cytosol

Map Position: [1,341,621 <- 1,342,370] (28.92 centisomes)
Length: 750 bp / 249 aa

Molecular Weight of Polypeptide: 27.603 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0004312 , DIP:DIP-11592N , EchoBASE:EB3664 , EcoGene:EG13905 , EcoliWiki:b1284 , ModBase:P76034 , OU-Microarray:b1284 , PortEco:yciT , Pride:P76034 , Protein Model Portal:P76034 , RefSeq:NP_415800 , RegulonDB:G6638 , SMR:P76034 , String:511145.b1284 , UniProt:P76034

Relationship Links: InterPro:IN-FAMILY:IPR001034 , InterPro:IN-FAMILY:IPR011991 , InterPro:IN-FAMILY:IPR014036 , InterPro:IN-FAMILY:IPR018356 , Pfam:IN-FAMILY:PF00455 , Pfam:IN-FAMILY:PF08220 , Prints:IN-FAMILY:PR00037 , Prosite:IN-FAMILY:PS00894 , Prosite:IN-FAMILY:PS51000 , Smart:IN-FAMILY:SM00420

In Paralogous Gene Group: 583 (2 members)

GO Terms:

Biological Process: GO:0006351 - transcription, DNA-templated Inferred from experiment Inferred by computational analysis [UniProtGOA11, PerezRueda00, PerezRueda04, ElgrablyWeiss06]
GO:0006974 - cellular response to DNA damage stimulus Inferred from experiment [Khil02]
GO:0006355 - regulation of transcription, DNA-templated Inferred by computational analysis [UniProtGOA11, GOA01]
Molecular Function: GO:0003677 - DNA binding Inferred by computational analysis [UniProtGOA11]
GO:0003700 - sequence-specific DNA binding transcription factor activity Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred from experiment Inferred by computational analysis [DiazMejia09, Ishihama08, LopezCampistrou05]
GO:0005622 - intracellular Inferred by computational analysis [GOA01]

MultiFun Terms: information transfer RNA related Transcription related
regulation type of regulation transcriptional level repressor

Essentiality data for yciT knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]

Credits:
Last-Curated ? 03-Feb-2006 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Conserved-Region 1 -> 56
[UniProt09]
UniProt: HTH deoR-type;
DNA-Binding-Region 18 -> 37
[UniProt10]
UniProt: H-T-H motif; Non-Experimental Qualifier: potential;


Gene Local Context (not to scale): ?

Transcription Units:

Notes:

History:
Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.


References

Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

ElgrablyWeiss06: Elgrably-Weiss M, Schlosser-Silverman E, Rosenshine I, Altuvia S (2006). "DeoT, a DeoR-type transcriptional regulator of multiple target genes." FEMS Microbiol Lett 254(1);141-148. PMID: 16451192

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

GOA01: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

Ishihama08: Ishihama Y, Schmidt T, Rappsilber J, Mann M, Hartl FU, Kerner MJ, Frishman D (2008). "Protein abundance profiling of the Escherichia coli cytosol." BMC Genomics 9;102. PMID: 18304323

Joyce06: Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BO, Agarwalla S (2006). "Experimental and computational assessment of conditionally essential genes in Escherichia coli." J Bacteriol 188(23);8259-71. PMID: 17012394

Khil02: Khil PP, Camerini-Otero RD (2002). "Over 1000 genes are involved in the DNA damage response of Escherichia coli." Mol Microbiol 44(1);89-105. PMID: 11967071

LopezCampistrou05: Lopez-Campistrous A, Semchuk P, Burke L, Palmer-Stone T, Brokx SJ, Broderick G, Bottorff D, Bolch S, Weiner JH, Ellison MJ (2005). "Localization, annotation, and comparison of the Escherichia coli K-12 proteome under two states of growth." Mol Cell Proteomics 4(8);1205-9. PMID: 15911532

Maciag11: Maciag A, Peano C, Pietrelli A, Egli T, De Bellis G, Landini P (2011). "In vitro transcription profiling of the {sigma}S subunit of bacterial RNA polymerase: re-definition of the {sigma}S regulon and identification of {sigma}S-specific promoter sequence elements." Nucleic Acids Res 39(13);5338-55. PMID: 21398637

PerezRueda00: Perez-Rueda E, Collado-Vides J (2000). "The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12." Nucleic Acids Res 28(8);1838-47. PMID: 10734204

PerezRueda04: Perez-Rueda E, Collado-Vides J, Segovia L (2004). "Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea." Comput Biol Chem 28(5-6);341-50. PMID: 15556475

UniProt09: UniProt Consortium (2009). "UniProt version 15.8 released on 2009-10-01 00:00:00." Database.

UniProt10: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."


Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 18.5 on Sun Dec 21, 2014, biocyc13.