KEGG   PATHWAY: metu00020
Entry
metu00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Methylococcus geothermalis
Description
The citrate cycle (TCA cycle, Krebs cycle) is an important aerobic pathway for the final steps of the oxidation of carbohydrates and fatty acids. The cycle starts with acetyl-CoA, the activated form of acetate, derived from glycolysis and pyruvate oxidation for carbohydrates and from beta oxidation of fatty acids. The two-carbon acetyl group in acetyl-CoA is transferred to the four-carbon compound of oxaloacetate to form the six-carbon compound of citrate. In a series of reactions two carbons in citrate are oxidized to CO2 and the reaction pathway supplies NADH for use in the oxidative phosphorylation and other metabolic processes. The pathway also supplies important precursor metabolites including 2-oxoglutarate. At the end of the cycle the remaining four-carbon part is transformed back to oxaloacetate. According to the genome sequence data, many organisms seem to lack genes for the full cycle [MD:M00009], but contain genes for specific segments [MD:M00010 M00011].
Class
Metabolism; Carbohydrate metabolism
Pathway map
metu00020  Citrate cycle (TCA cycle)
metu00020

Module
metu_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:metu00020]
metu_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:metu00020]
metu_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:metu00020]
metu_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:metu00020]
Other DBs
GO: 0006099
Organism
Methylococcus geothermalis [GN:metu]
Gene
GNH96_04795  citrate synthase [KO:K01647] [EC:2.3.3.1]
GNH96_05500  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
GNH96_02175  NAD-dependent isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
GNH96_08230  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
GNH96_08225  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
GNH96_01150  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GNH96_08530  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
GNH96_10420  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
GNH96_08525  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
GNH96_07585  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GNH96_07630  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
GNH96_07595  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
GNH96_07590  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
GNH96_07625  aspartate ammonia-lyase [KO:K01679] [EC:4.2.1.2]
GNH96_15125  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GNH96_01140  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
GNH96_01145  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
GNH96_04325  nifJ; pyruvate:ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
Compound
C00022  Pyruvate
C00024  Acetyl-CoA
C00026  2-Oxoglutarate
C00036  Oxaloacetate
C00042  Succinate
C00068  Thiamin diphosphate
C00074  Phosphoenolpyruvate
C00091  Succinyl-CoA
C00122  Fumarate
C00149  (S)-Malate
C00158  Citrate
C00311  Isocitrate
C00417  cis-Aconitate
C05125  2-(alpha-Hydroxyethyl)thiamine diphosphate
C05379  Oxalosuccinate
C05381  3-Carboxy-1-hydroxypropyl-ThPP
C15972  Enzyme N6-(lipoyl)lysine
C15973  Enzyme N6-(dihydrolipoyl)lysine
C16254  [Dihydrolipoyllysine-residue succinyltransferase] S-succinyldihydrolipoyllysine
C16255  [Dihydrolipoyllysine-residue acetyltransferase] S-acetyldihydrolipoyllysine
Reference
  Authors
Nishizuka Y (ed).
  Title
[Metabolic Maps] (In Japanese)
  Journal
Tokyo Kagaku Dojin (1980)
Reference
  Authors
Nishizuka Y, Seyama Y, Ikai A, Ishimura Y, Kawaguchi A (eds).
  Title
[Cellular Functions and Metabolic Maps] (In Japanese)
  Journal
Tokyo Kagaku Dojin (1997)
Reference
  Authors
Michal G.
  Title
Biochemical Pathways
  Journal
Wiley (1999)
Related
pathway
metu00010  Glycolysis / Gluconeogenesis
metu00053  Ascorbate and aldarate metabolism
metu00061  Fatty acid biosynthesis
metu00071  Fatty acid degradation
metu00190  Oxidative phosphorylation
metu00220  Arginine biosynthesis
metu00250  Alanine, aspartate and glutamate metabolism
metu00280  Valine, leucine and isoleucine degradation
metu00350  Tyrosine metabolism
metu00470  D-Amino acid metabolism
metu00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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