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Escherichia coli K-12 substr. MG1655 Polypeptide: GlcC transcriptional dual regulator



Gene: glcC Accession Numbers: G7546 (EcoCyc), b2980, ECK2975

Synonyms: yghN

Regulation Summary Diagram: ?

Component of: GlcC-Glycolate DNA-binding transcriptional dual regulator

Summary:
GlcC (for "glycolate utilization") negatively controls the expression of genes involved in the utilization of glycolate as the sole source of carbon [Pellicer99a, Pellicer96]. It is negatively autoregulated and coordinately activated by transcription of the divergent operon glc, which is related to the transport and metabolism of glycolate [Pellicer99a]. Synthesis of glc genes is induced when Escherichia coli is grown on glycolate [Pellicer99a].

GlcC features an N-terminal domain containing a helix-turn-helix motif [Pellicer96] and a putative C-terminal domain that includes the key residues involved in coinducer recognition and oligomerization.

Although little is known about the mechanism of regulation of the GlcC transcription factor, Pellicer et al. demonstrated that it is a regulator that acts as a repressor by binding to cis-acting elements, inverted repeat sequences that are not well-conserved, that overlap the ATG sequence [Pellicer99a].

Locations: cytosol

Map Position: [3,126,294 -> 3,127,058] (67.38 centisomes)
Length: 765 bp / 254 aa

Molecular Weight of Polypeptide: 28.826 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0009777 , EchoBASE:EB2821 , EcoGene:EG12998 , EcoliWiki:b2980 , ModBase:P0ACL5 , OU-Microarray:b2980 , PortEco:glcC , PR:PRO_000022773 , Protein Model Portal:P0ACL5 , RefSeq:NP_417454 , RegulonDB:G7546 , SMR:P0ACL5 , String:511145.b2980 , UniProt:P0ACL5

Relationship Links: InterPro:IN-FAMILY:IPR000524 , InterPro:IN-FAMILY:IPR008920 , InterPro:IN-FAMILY:IPR011711 , InterPro:IN-FAMILY:IPR011991 , InterPro:IN-FAMILY:IPR027376 , Pfam:IN-FAMILY:PF00392 , Pfam:IN-FAMILY:PF07729 , Prints:IN-FAMILY:PR00035 , Prosite:IN-FAMILY:PS50949 , Smart:IN-FAMILY:SM00345 , Smart:IN-FAMILY:SM00895

In Paralogous Gene Group: 38 (9 members)

In Reactions of unknown directionality:

Not in pathways:
GlcC + glycolate = GlcC-glycolate

Gene-Reaction Schematic: ?

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0006355 - regulation of transcription, DNA-templated Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA01, Pellicer99a]
GO:0006351 - transcription, DNA-templated Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0003677 - DNA binding Inferred from experiment Inferred by computational analysis [UniProtGOA11, Pellicer99a]
GO:0005515 - protein binding Inferred from experiment [Rajagopala14]
GO:0003700 - sequence-specific DNA binding transcription factor activity Inferred by computational analysis [GOA01]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

MultiFun Terms: information transfer RNA related Transcription related
metabolism carbon utilization carbon compounds
regulation genetic unit regulated operon
regulation type of regulation transcriptional level activator
regulation type of regulation transcriptional level repressor

DNA binding site length: 15 base-pairs

Symmetry: Inverted Repeat

Essentiality data for glcC 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 ? 30-Dec-2005 by Keseler I , SRI International
Revised 23-May-2011 by Brito D


Subunit of: GlcC-Glycolate DNA-binding transcriptional dual regulator

Synonyms: B2980, YghN, GlcC, GlcC-glycolate

Subunit composition of GlcC-Glycolate DNA-binding transcriptional dual regulator = [GlcC][glycolate]
         GlcC transcriptional dual regulator = GlcC (extended summary available)

Sequence Length: 254 AAs

Molecular Weight: 28.826 kD (from nucleotide sequence)

Relationship Links: Pfam:IN-FAMILY:PF00392

In Reactions of unknown directionality:

Not in pathways:
GlcC + glycolate = GlcC-glycolate

MultiFun Terms: information transfer RNA related Transcription related
metabolism carbon utilization carbon compounds
regulation genetic unit regulated operon
regulation type of regulation transcriptional level activator
regulation type of regulation transcriptional level repressor

DNA binding site length: 15 base-pairs

Symmetry: Inverted Repeat

Regulated Transcription Units (2 total): ?

Notes:


Sequence Features

Feature Class Location Citations Comment
Conserved-Region 6 -> 74
[UniProt09]
UniProt: HTH gntR-type;
DNA-Binding-Region 34 -> 53
[UniProt10a]
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

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."

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

Pellicer96: Pellicer MT, Badia J, Aguilar J, Baldoma L (1996). "glc locus of Escherichia coli: characterization of genes encoding the subunits of glycolate oxidase and the glc regulator protein." J Bacteriol 1996;178(7);2051-9. PMID: 8606183

Pellicer99a: Pellicer MT, Fernandez C, Badia J, Aguilar J, Lin EC, Baldom L (1999). "Cross-induction of glc and ace operons of Escherichia coli attributable to pathway intersection. Characterization of the glc promoter." J Biol Chem 274(3);1745-52. PMID: 9880556

Rajagopala14: Rajagopala SV, Sikorski P, Kumar A, Mosca R, Vlasblom J, Arnold R, Franca-Koh J, Pakala SB, Phanse S, Ceol A, Hauser R, Siszler G, Wuchty S, Emili A, Babu M, Aloy P, Pieper R, Uetz P (2014). "The binary protein-protein interaction landscape of Escherichia coli." Nat Biotechnol 32(3);285-90. PMID: 24561554

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

UniProt10a: 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."

Other References Related to Gene Regulation

Bradley07: Bradley MD, Beach MB, de Koning AP, Pratt TS, Osuna R (2007). "Effects of Fis on Escherichia coli gene expression during different growth stages." Microbiology 153(Pt 9);2922-40. PMID: 17768236

Shimada11: Shimada T, Yamamoto K, Ishihama A (2011). "Novel Members of the Cra Regulon Involved in Carbon Metabolism in Escherichia coli." J Bacteriol 193(3);649-59. PMID: 21115656

Zheng04: Zheng D, Constantinidou C, Hobman JL, Minchin SD (2004). "Identification of the CRP regulon using in vitro and in vivo transcriptional profiling." Nucleic Acids Res 32(19);5874-93. PMID: 15520470


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 Mon Dec 22, 2014, biocyc13.