KEGG   PATHWAY: vpf00020
Entry
vpf00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Vibrio parahaemolyticus O1:Kuk FDA_R31
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
vpf00020  Citrate cycle (TCA cycle)
vpf00020

Module
vpf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vpf00020]
vpf_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vpf00020]
vpf_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vpf00020]
vpf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vpf00020]
vpf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vpf00020]
Other DBs
GO: 0006099
Organism
Vibrio parahaemolyticus O1:Kuk FDA_R31 [GN:vpf]
Gene
M634_06220  gltA; type II citrate synthase [KO:K01647] [EC:2.3.3.1]
M634_21440  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
M634_14870  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
M634_07055  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
M634_06245  2-oxoglutarate dehydrogenase E1 [KO:K00164] [EC:1.2.4.2]
M634_06250  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
M634_14960  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
M634_06260  succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
M634_06255  sucC; malate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
M634_06235  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
M634_06240  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
M634_06225  sdhC; succinate dehydrogenase cytochrome b556 large membrane subunit [KO:K00241]
M634_06230  sdhD; succinate dehydrogenase cytochrome b556 small membrane subunit [KO:K00242]
M634_00720  fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
M634_00725  fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
M634_00730  fumarate reductase [KO:K00246]
M634_00735  fumarate reductase [KO:K00247]
M634_11260  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
M634_00875  fumarate hydratase [KO:K01679] [EC:4.2.1.2]
M634_24010  transcriptional regulator [KO:K01774] [EC:4.2.1.2]
M634_03605  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
M634_02645  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
M634_14970  aceE; pyruvate dehydrogenase [KO:K00163] [EC:1.2.4.1]
M634_14965  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
vpf00010  Glycolysis / Gluconeogenesis
vpf00053  Ascorbate and aldarate metabolism
vpf00061  Fatty acid biosynthesis
vpf00071  Fatty acid degradation
vpf00190  Oxidative phosphorylation
vpf00220  Arginine biosynthesis
vpf00250  Alanine, aspartate and glutamate metabolism
vpf00280  Valine, leucine and isoleucine degradation
vpf00350  Tyrosine metabolism
vpf00470  D-Amino acid metabolism
vpf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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