KEGG   PATHWAY: gdi00020
Entry
gdi00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Gluconacetobacter diazotrophicus PA1 5 (Brazil)
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
gdi00020  Citrate cycle (TCA cycle)
gdi00020

Module
gdi_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gdi00020]
gdi_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gdi00020]
gdi_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gdi00020]
gdi_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gdi00020]
gdi_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gdi00020]
Other DBs
GO: 0006099
Organism
Gluconacetobacter diazotrophicus PA1 5 (Brazil) [GN:gdi]
Gene
GDI1830  Citrate synthase [KO:K01647] [EC:2.3.3.1]
GDI1355  acnA; Aconitate hydratase [KO:K01681] [EC:4.2.1.3]
GDI0904  icd; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
GDI1991  Isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
GDI1416  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
GDI1417  sucB; 2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
GDI1942  lpdA; putative dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GDI1418  sucC; 2-oxoglutarate dehydrogenase E3 component [KO:K00382] [EC:1.8.1.4]
GDI2952  sucD; putative Succinyl-CoA ligase [GDP-forming] alpha-chain [KO:K01902] [EC:6.2.1.5]
GDI2951  sucC; putative succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
GDI1836  Acetyl-CoA hydrolase [KO:K18118] [EC:2.8.3.18]
GDI1404  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GDI1403  sdhB; Succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
GDI1406  sdhC; putative Succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
GDI1405  sdhD; putative succinate dehydrogenase hydrophobic membrane anchor protein [KO:K00242]
GDI0870  fumA; Fumarate hydratase class [KO:K01676] [EC:4.2.1.2]
GDI0852  fumC; putative fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
GDI2161  mqo; putative malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
GDI0610  pckA; Phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
GDI1939  phdA; Pyruvate dehydrogenase E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
GDI1940  pdhB; Pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
GDI1941  pdhC; Dihydrolipoamid acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
GDI1720  putative pyruvate dehydrogenase E2 component [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
gdi00010  Glycolysis / Gluconeogenesis
gdi00053  Ascorbate and aldarate metabolism
gdi00061  Fatty acid biosynthesis
gdi00071  Fatty acid degradation
gdi00190  Oxidative phosphorylation
gdi00220  Arginine biosynthesis
gdi00250  Alanine, aspartate and glutamate metabolism
gdi00280  Valine, leucine and isoleucine degradation
gdi00350  Tyrosine metabolism
gdi00470  D-Amino acid metabolism
gdi00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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