KEGG   PATHWAY: vhr00020
Entry
vhr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Vibrio harveyi
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
vhr00020  Citrate cycle (TCA cycle)
vhr00020

Module
vhr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vhr00020]
vhr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vhr00020]
vhr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vhr00020]
vhr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vhr00020]
vhr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vhr00020]
Other DBs
GO: 0006099
Organism
Vibrio harveyi [GN:vhr]
Gene
AL538_13735  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
AL538_06380  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
AL538_14740  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
AL538_13760  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
AL538_13765  dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
AL538_07805  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
AL538_06470  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
AL538_13775  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
AL538_13770  succinyl-CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
AL538_13750  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
AL538_13755  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
AL538_13740  succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
AL538_13745  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
AL538_08265  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
AL538_08270  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
AL538_08275  fumarate reductase subunit C [KO:K00246]
AL538_08280  fumarate reductase subunit D [KO:K00247]
AL538_02970  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
AL538_08440  aspA; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
AL538_26350  transcriptional regulator [KO:K01774] [EC:4.2.1.2]
AL538_11140  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
AL538_10235  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
AL538_06480  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
AL538_06475  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue 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
vhr00010  Glycolysis / Gluconeogenesis
vhr00053  Ascorbate and aldarate metabolism
vhr00061  Fatty acid biosynthesis
vhr00071  Fatty acid degradation
vhr00190  Oxidative phosphorylation
vhr00220  Arginine biosynthesis
vhr00250  Alanine, aspartate and glutamate metabolism
vhr00280  Valine, leucine and isoleucine degradation
vhr00350  Tyrosine metabolism
vhr00470  D-Amino acid metabolism
vhr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system