Escherichia coli K-12 substr. MG1655 Enzyme: L-2-hydroxyglutarate oxidase

Gene: lhgO Accession Numbers: EG12387 (EcoCyc), b2660, ECK2654

Synonyms: ygaF

Regulation Summary Diagram: ?

Regulation summary diagram for lhgO

LhgO is a L-2-hydroxyglutarate oxidase that contains an FAD cofactor which is not covalently attached. The reduction potential is relatively high at -25 mV, which may explain why the reaction is apparently irreversible [Kalliri08].

lhgO is part of an operon whose expression is induced upon carbon starvation and in stationary phase [Marschall98, Becker01a, Germer01, Metzner04].

LhgO: "L-2-hydroxyglutarate oxidase" [Kalliri08]

Locations: inner membrane, cytosol

Map Position: [2,788,004 -> 2,789,272] (60.09 centisomes, 216°)
Length: 1269 bp / 422 aa

Molecular Weight of Polypeptide: 46.082 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0008756 , DIP:DIP-12096N , EchoBASE:EB2288 , EcoGene:EG12387 , EcoliWiki:b2660 , Mint:MINT-1301841 , ModBase:P37339 , OU-Microarray:b2660 , PortEco:lhgO , Protein Model Portal:P37339 , RefSeq:NP_417146 , RegulonDB:EG12387 , SMR:P37339 , String:511145.b2660 , UniProt:P37339

Relationship Links: InterPro:IN-FAMILY:IPR006076 , Pfam:IN-FAMILY:PF01266

In Paralogous Gene Group: 442 (2 members)

Gene-Reaction Schematic: ?

Gene-Reaction Schematic

Genetic Regulation Schematic: ?

Genetic regulation schematic for lhgO

GO Terms:

Biological Process: GO:0055114 - oxidation-reduction process Inferred by computational analysis [UniProtGOA11a, GOA01a]
Molecular Function: GO:0034419 - L-2-hydroxyglutarate oxidase activity Inferred from experiment Inferred by computational analysis [GOA01a, Kalliri08]
GO:0050660 - flavin adenine dinucleotide binding Inferred from experiment Inferred by computational analysis [GOA06, Kalliri08]
GO:0003973 - (S)-2-hydroxy-acid oxidase activity Inferred by computational analysis [GOA06]
GO:0016491 - oxidoreductase activity Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0052852 - very-long-chain-(S)-2-hydroxy-acid oxidase activity Inferred by computational analysis [GOA01]
GO:0052853 - long-chain-(S)-2-hydroxy-long-chain-acid oxidase activity Inferred by computational analysis [GOA01]
GO:0052854 - medium-chain-(S)-2-hydroxy-acid oxidase activity Inferred by computational analysis [GOA01]
Cellular Component: GO:0005737 - cytoplasm Inferred from experiment [Kalliri08]
GO:0005886 - plasma membrane Inferred from experiment [Zhang07]


Essentiality data for lhgO knockouts: ?

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

Last-Curated ? 25-Apr-2008 by Keseler I , SRI International

Enzymatic reaction of: L-2-hydroxyglutarate oxidase

EC Number: 1.1.3.-

(S)-2-hydroxyglutarate + oxygen <=> 2-oxoglutarate + hydrogen peroxide

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the direction in which it was curated.

The reaction is irreversible in the direction shown. [Kalliri08]

The enzyme is specific for the L form of 2-hydroxyglutarate [Kalliri08].

Cofactors or Prosthetic Groups: FAD [Kalliri08]

Kinetic Parameters:

Km (μM)

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram


Peter D. Karp on Wed Jan 18, 2006:
Gene left-end position adjusted based on analysis performed in the 2005 E. coli annotation update [Riley06 ].
10/20/97 Gene b2660 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12387; 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

Becker01a: Becker G, Hengge-Aronis R (2001). "What makes an Escherichia coli promoter sigma(S) dependent? Role of the -13/-14 nucleotide promoter positions and region 2.5 of sigma(S)." Mol Microbiol 39(5);1153-65. PMID: 11251833

Germer01: Germer J, Becker G, Metzner M, Hengge-Aronis R (2001). "Role of activator site position and a distal UP-element half-site for sigma factor selectivity at a CRP/H-NS-activated sigma(s)-dependent promoter in Escherichia coli." Mol Microbiol 41(3);705-16. PMID: 11532138

GOA01: GOA, MGI (2001). "Gene Ontology annotation based on Enzyme Commission mapping." Genomics 74;121-128.

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

GOA06: GOA, SIB (2006). "Electronic Gene Ontology annotations created by transferring manual GO annotations between orthologous microbial proteins."

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

Kalliri08: Kalliri E, Mulrooney SB, Hausinger RP (2008). "Identification of Escherichia coli YgaF as an L-2-hydroxyglutarate oxidase." J Bacteriol 190(11);3793-8. PMID: 18390652

Marschall98: Marschall C, Labrousse V, Kreimer M, Weichart D, Kolb A, Hengge-Aronis R (1998). "Molecular analysis of the regulation of csiD, a carbon starvation-inducible gene in Escherichia coli that is exclusively dependent on sigma s and requires activation by cAMP-CRP." J Mol Biol 276(2);339-53. PMID: 9512707

Metzner04: Metzner M, Germer J, Hengge R (2004). "Multiple stress signal integration in the regulation of the complex sigma S-dependent csiD-ygaF-gabDTP operon in Escherichia coli." Mol Microbiol 51(3);799-811. PMID: 14731280

Riley06: Riley M, Abe T, Arnaud MB, Berlyn MK, Blattner FR, Chaudhuri RR, Glasner JD, Horiuchi T, Keseler IM, Kosuge T, Mori H, Perna NT, Plunkett G, Rudd KE, Serres MH, Thomas GH, Thomson NR, Wishart D, Wanner BL (2006). "Escherichia coli K-12: a cooperatively developed annotation snapshot--2005." Nucleic Acids Res 34(1);1-9. PMID: 16397293

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

Zhang07: Zhang N, Chen R, Young N, Wishart D, Winter P, Weiner JH, Li L (2007). "Comparison of SDS- and methanol-assisted protein solubilization and digestion methods for Escherichia coli membrane proteome analysis by 2-D LC-MS/MS." Proteomics 7(4);484-93. PMID: 17309111

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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
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