KEGG   PATHWAY: oce00020
Entry
oce00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Oceanimonas sp. GK1
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
oce00020  Citrate cycle (TCA cycle)
oce00020

Module
oce_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:oce00020]
oce_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:oce00020]
oce_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:oce00020]
oce_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:oce00020]
oce_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:oce00020]
Other DBs
GO: 0006099
Organism
Oceanimonas sp. GK1 [GN:oce]
Gene
GU3_09280  gltA; type II citrate synthase [KO:K01647] [EC:2.3.3.1]
GU3_07390  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
GU3_15320  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
GU3_00335  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
GU3_06935  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
GU3_09305  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
GU3_09310  2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
GU3_15335  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
GU3_09320  succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
GU3_09315  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
GU3_09295  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GU3_09300  succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
GU3_09285  sdhC; succinate dehydrogenase cytochrome b556 large membrane subunit [KO:K00241]
GU3_09290  succinate dehydrogenase hydrophobic membrane anchor protein [KO:K00242]
GU3_09755  fumarate hydratase, class I [KO:K01676] [EC:4.2.1.2]
GU3_01345  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
GU3_15230  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GU3_01075  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
GU3_15345  aceE; pyruvate dehydrogenase subunit E1 [KO:K00163] [EC:1.2.4.1]
GU3_11725  pyruvate dehydrogenase [KO:K00161] [EC:1.2.4.1]
GU3_11720  pyruvate dehydrogenase complex, E1 beta2 component [KO:K00162] [EC:1.2.4.1]
GU3_11715  branched-chain alpha-keto acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
GU3_15340  dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
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
oce00010  Glycolysis / Gluconeogenesis
oce00061  Fatty acid biosynthesis
oce00071  Fatty acid degradation
oce00190  Oxidative phosphorylation
oce00220  Arginine biosynthesis
oce00250  Alanine, aspartate and glutamate metabolism
oce00280  Valine, leucine and isoleucine degradation
oce00350  Tyrosine metabolism
oce00470  D-Amino acid metabolism
oce00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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