KEGG   PATHWAY: oco00020
Entry
oco00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Afipia carboxidovorans OM4
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
oco00020  Citrate cycle (TCA cycle)
oco00020

Module
oco_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:oco00020]
oco_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:oco00020]
oco_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:oco00020]
oco_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:oco00020]
oco_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:oco00020]
Other DBs
GO: 0006099
Organism
Afipia carboxidovorans OM4 [GN:oco]
Gene
OCA4_c20520  gltA; citrate synthase GltA [KO:K01647] [EC:2.3.3.1]
OCA4_c33210  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
OCA4_c25430  icd; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
OCA4_c33100  sucA; 2-oxoglutarate dehydrogenase componentSucA [KO:K00164] [EC:1.2.4.2]
OCA4_c33090  sucB; dihydrolipoamide succinyltransferase SucB [KO:K00658] [EC:2.3.1.61]
OCA4_c17520  lpd1; dihydrolipoyl dehydrogenase Lpd [KO:K00382] [EC:1.8.1.4]
OCA4_c33070  lpd2; dihydrolipoyl dehydrogenase Lpd [KO:K00382] [EC:1.8.1.4]
OCA4_c15060  sucD4; succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
OCA4_c14960  sucD3; succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
OCA4_c13360  sucD2; succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
OCA4_c15070  sucC3; succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
OCA4_c14950  sucC2; succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
OCA4_c13350  sucC1; succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
OCA4_c02310  sdhA; succinate dehydrogenase flavoprotein subunit SdhA [KO:K00239] [EC:1.3.5.1]
OCA4_c02300  sdhB; succinate dehydrogenase iron-sulfur subunit SdhB [KO:K00240] [EC:1.3.5.1]
OCA4_c02330  sdhC; succinate dehydrogenase, cytochrome b subunit SdhC [KO:K00241]
OCA4_c02320  sdhD; succinate dehydrogenase, membrane anchor SdhD [KO:K00242]
OCA4_c25690  fumA; fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
OCA4_c26970  fumC; fumarate hydratase class II 1 [KO:K01679] [EC:4.2.1.2]
OCA4_c33110  mdh; malate dehydrogenase Mdh [KO:K00024] [EC:1.1.1.37]
OCA4_c05690  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
OCA4_c10070  transketolase [KO:K00163] [EC:1.2.4.1]
OCA4_c17470  pdhA; pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
OCA4_c17480  pdhB; pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
OCA4_c17490  pdhC; dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [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
oco00010  Glycolysis / Gluconeogenesis
oco00053  Ascorbate and aldarate metabolism
oco00061  Fatty acid biosynthesis
oco00071  Fatty acid degradation
oco00190  Oxidative phosphorylation
oco00220  Arginine biosynthesis
oco00250  Alanine, aspartate and glutamate metabolism
oco00280  Valine, leucine and isoleucine degradation
oco00350  Tyrosine metabolism
oco00470  D-Amino acid metabolism
oco00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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