KEGG   PATHWAY: vpb00020
Entry
vpb00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Vibrio parahaemolyticus BB22OP
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
vpb00020  Citrate cycle (TCA cycle)
vpb00020

Module
vpb_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vpb00020]
vpb_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vpb00020]
vpb_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vpb00020]
vpb_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vpb00020]
vpb_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vpb00020]
Other DBs
GO: 0006099
Organism
Vibrio parahaemolyticus BB22OP [GN:vpb]
Gene
VPBB_0799  Citrate synthase (si) [KO:K01647] [EC:2.3.3.1]
VPBB_2321  Aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
VPBB_0962  Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
VPBB_0804  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
VPBB_0805  Dihydrolipoamide succinyltransferase component (E2) of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
VPBB_2339  Glutathione reductase [KO:K00382] [EC:1.8.1.4]
VPBB_0807  Succinyl-CoA ligase [ADP-forming] alpha chain [KO:K01902] [EC:6.2.1.5]
VPBB_0806  Succinyl-CoA ligase [ADP-forming] beta chain [KO:K01903] [EC:6.2.1.5]
VPBB_0802  Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
VPBB_0803  Succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
VPBB_0800  Succinate dehydrogenase cytochrome b-556 subunit [KO:K00241]
VPBB_0801  Succinate dehydrogenase hydrophobic membrane anchor protein [KO:K00242]
VPBB_2690  Succinate dehydrogenase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
VPBB_2691  Succinate dehydrogenase iron-sulfur protein [KO:K00245] [EC:1.3.5.1]
VPBB_2692  Fumarate reductase subunit C [KO:K00246]
VPBB_2693  Fumarate reductase subunit D [KO:K00247]
VPBB_1725  Fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
VPBB_2722  Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
VPBB_0334  Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
VPBB_0119  Phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
VPBB_2341  Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
VPBB_2340  Dihydrolipoamide 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
vpb00010  Glycolysis / Gluconeogenesis
vpb00053  Ascorbate and aldarate metabolism
vpb00061  Fatty acid biosynthesis
vpb00071  Fatty acid degradation
vpb00190  Oxidative phosphorylation
vpb00220  Arginine biosynthesis
vpb00250  Alanine, aspartate and glutamate metabolism
vpb00280  Valine, leucine and isoleucine degradation
vpb00350  Tyrosine metabolism
vpb00470  D-Amino acid metabolism
vpb00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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