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

Gene: glrR Accession Numbers: EG11285 (EcoCyc), b2554, ECK2551

Synonyms: yfhA, GlrR response regulator

Regulation Summary Diagram: ?

Regulation summary diagram for glrR

Alternative forms of GlrR DNA-binding transcriptional activator: GlrR-Pasp56 DNA binding transcriptional activator

GlrR is the response regulator of the two-component GlrKR signal transduction system [Reichenbach09]. GlrR contains a σ54 interaction domain which binds to a DNA region located more than 100bp upstream of glmY. Transcription of a glmY-lacZ fusion from the σ54 promoter is abolished in a GlrR null strain. Purified GlrR can be phosphorylated in vitro by the cognate histidine kinase GlrK as well as by the non-cognate histidine kinases UhpB, RstB, and BaeS [Yamamoto05].

GlrR: "glmY-regulating response regulator" [Reichenbach09]

Citations: [PerezRueda00]

Gene Citations: [vanHeeswijk93]

Locations: cytosol

Map Position: [2,685,491 <- 2,686,825] (57.88 centisomes, 208°)
Length: 1335 bp / 444 aa

Molecular Weight of Polypeptide: 49.148 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0008400 , DIP:DIP-12044N , EchoBASE:EB1262 , EcoGene:EG11285 , EcoliWiki:b2554 , Mint:MINT-1317436 , ModBase:P0AFU4 , OU-Microarray:b2554 , PortEco:glrR , PR:PRO_000025109 , Pride:P0AFU4 , Protein Model Portal:P0AFU4 , RefSeq:NP_417049 , RegulonDB:EG11285 , SMR:P0AFU4 , String:511145.b2554 , UniProt:P0AFU4

Relationship Links: InterPro:IN-FAMILY:IPR001789 , InterPro:IN-FAMILY:IPR002078 , InterPro:IN-FAMILY:IPR003593 , InterPro:IN-FAMILY:IPR009057 , InterPro:IN-FAMILY:IPR011006 , InterPro:IN-FAMILY:IPR025662 , InterPro:IN-FAMILY:IPR025943 , InterPro:IN-FAMILY:IPR025944 , InterPro:IN-FAMILY:IPR027417 , Pfam:IN-FAMILY:PF00072 , Pfam:IN-FAMILY:PF00158 , Prosite:IN-FAMILY:PS00675 , Prosite:IN-FAMILY:PS00676 , Prosite:IN-FAMILY:PS00688 , Prosite:IN-FAMILY:PS50045 , Prosite:IN-FAMILY:PS50110 , Smart:IN-FAMILY:SM00382 , Smart:IN-FAMILY:SM00448

In Paralogous Gene Group: 105 (10 members) , 121 (40 members)

Reactions known to consume the compound:

GlrKR Two-Component Signal Transduction System :
GlrK sensory histidine kinase - phosphorylated + GlrR → GlrK + GlrR-Pasp56

Gene-Reaction Schematic: ?

Gene-Reaction Schematic

Genetic Regulation Schematic: ?

Genetic regulation schematic for glrR

GO Terms:

Biological Process: GO:0000160 - phosphorelay signal transduction system Inferred from experiment Inferred by computational analysis [UniProtGOA11a, GOA01a, Reichenbach09]
GO:0006351 - transcription, DNA-templated Inferred from experiment Inferred by computational analysis [UniProtGOA11a, PerezRueda00, PerezRueda04, Yamamoto05]
GO:0006355 - regulation of transcription, DNA-templated Inferred from experiment Inferred by computational analysis [UniProtGOA11a, GOA01a, Reichenbach09]
Molecular Function: GO:0000156 - phosphorelay response regulator activity Inferred from experiment [Reichenbach09]
GO:0003700 - sequence-specific DNA binding transcription factor activity Inferred from experiment Inferred by computational analysis [Gaudet10, Reichenbach09]
GO:0000166 - nucleotide binding Inferred by computational analysis [UniProtGOA11a]
GO:0003677 - DNA binding Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0005524 - ATP binding Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0008134 - transcription factor binding Inferred by computational analysis [GOA01a]
GO:0043565 - sequence-specific DNA binding Inferred by computational analysis [Gaudet10]
GO:0044212 - transcription regulatory region DNA binding Inferred by computational analysis [Gaudet10]
Cellular Component: GO:0005737 - cytoplasm Inferred by computational analysis [UniProtGOA11, UniProtGOA11a]
GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

MultiFun Terms: information transfer protein related posttranslational modification
information transfer RNA related Transcription related
regulation type of regulation transcriptional level activator
regulation type of regulation transcriptional level complex regulation two component regulatory systems (external signal)

Transcription Units regulated by related protein GlrR-Pasp56 DNA binding transcriptional activator (1 total):

Transcription-unit diagram

Essentiality data for glrR 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]

Last-Curated ? 20-Jan-2006 by Keseler I , SRI International

Sequence Features

Protein sequence of GlrR DNA-binding transcriptional activator with features indicated

Feature Class Location Citations Comment State
Conserved-Region 7 -> 121
UniProt: Response regulatory;
4-aspartylphosphate-Modification 56
UniProt: 4-aspartylphosphate; Non-Experimental Qualifier: by similarity.
Sequence-Conflict 106
[Liu93, UniProt10]
UniProt: (in Ref. 1; AAB28778);
Conserved-Region 136 -> 366
UniProt: Sigma-54 factor interaction; Non-Experimental Qualifier: potential;
Nucleotide-Phosphate-Binding-Region 164 -> 171
UniProt: ATP; Non-Experimental Qualifier: potential;
Nucleotide-Phosphate-Binding-Region 227 -> 236
UniProt: ATP; Non-Experimental Qualifier: potential;
Sequence-Conflict 309 -> 310
[Liu93, UniProt10]
UniProt: (in Ref. 1; AAB28778);
Sequence-Conflict 327 -> 328
[Liu93, UniProt10]
UniProt: (in Ref. 1; AAB28778);
DNA-Binding-Region 414 -> 433
UniProt: H-T-H motif; Non-Experimental Qualifier: potential;

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram


10/20/97 Gene b2554 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG11285; confirmed by SwissProt match.


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

Gaudet10: Gaudet P, Livstone M, Thomas P (2010). "Annotation inferences using phylogenetic trees." PMID: 19578431

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

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

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

Liu93: Liu J, Magasanik B (1993). "The glnB region of the Escherichia coli chromosome." J Bacteriol 1993;175(22);7441-9. PMID: 8226691

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

Reichenbach09: Reichenbach B, Gopel Y, Gorke B (2009). "Dual control by perfectly overlapping sigma(54)- and sigma(70)-promoters adjusts small RNA GlmY expression to different environmental signals." Mol Microbiol 74(5):1054-70. PMID: 19843219

UniProt08: UniProt Consortium (2008). "UniProt version 14.6 released on 2008-12-16." Database.

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

UniProt10: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 00:00:00." Database.

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProt11: UniProt Consortium (2011). "UniProt version 2011-11 released on 2011-11-22 00:00:00." Database.

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

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

vanHeeswijk93: van Heeswijk WC, Rabenberg M, Westerhoff HV, Kahn D (1993). "The genes of the glutamine synthetase adenylylation cascade are not regulated by nitrogen in Escherichia coli." Mol Microbiol 9(3);443-57. PMID: 8412694

Yamamoto05: Yamamoto K, Hirao K, Oshima T, Aiba H, Utsumi R, Ishihama A (2005). "Functional characterization in vitro of all two-component signal transduction systems from Escherichia coli." J Biol Chem 280(2);1448-56. PMID: 15522865

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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 19.0 on Thu Oct 8, 2015, biocyc14.