KEGG   PATHWAY: vsr00020
Entry
vsr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Vibrio spartinae
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
vsr00020  Citrate cycle (TCA cycle)
vsr00020

Module
vsr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vsr00020]
vsr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vsr00020]
vsr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vsr00020]
vsr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vsr00020]
vsr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vsr00020]
vsr_M00982  Methylcitrate cycle [PATH:vsr00020]
Other DBs
GO: 0006099
Organism
Vibrio spartinae [GN:vsr]
Gene
Vspart_00279  frdD_1; Fumarate reductase 13 kDa hydrophobic protein [KO:K00247]
Vspart_00280  frdC_1; Fumarate reductase 15 kDa hydrophobic protein [KO:K00246]
Vspart_00281  frdB_1; Fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
Vspart_00282  frdA_1; Fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
Vspart_00559  aceE; Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
Vspart_00560  aceF; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
Vspart_00561  lpdA; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
Vspart_00591  acnB_1; Aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Vspart_00695  fumC; Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
Vspart_01393  acnB_2; Aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Vspart_01817  prpC; 2-methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
Vspart_01829  fumB; Fumarate hydratase class I, anaerobic [KO:K01676] [EC:4.2.1.2]
Vspart_02071  icd2; Isocitrate dehydrogenase [NADP] 2 [KO:K00031] [EC:1.1.1.42]
Vspart_02190  frdA_2; Fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
Vspart_02191  frdB_2; Fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
Vspart_02192  frdC_2; Fumarate reductase 15 kDa hydrophobic protein [KO:K00246]
Vspart_02193  frdD_2; Fumarate reductase 13 kDa hydrophobic protein [KO:K00247]
Vspart_02346  sucD; Succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
Vspart_02347  sucC; Succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
Vspart_02349  sucB; Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
Vspart_02350  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
Vspart_02351  sdhB; Succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
Vspart_02352  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Vspart_02353  sdhD; Succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
Vspart_02354  sdhC; Succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
Vspart_02355  gltA; Citrate synthase [KO:K01647] [EC:2.3.3.1]
Vspart_02919  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Vspart_03172  pckA; Phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
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
vsr00010  Glycolysis / Gluconeogenesis
vsr00053  Ascorbate and aldarate metabolism
vsr00061  Fatty acid biosynthesis
vsr00071  Fatty acid degradation
vsr00190  Oxidative phosphorylation
vsr00220  Arginine biosynthesis
vsr00250  Alanine, aspartate and glutamate metabolism
vsr00280  Valine, leucine and isoleucine degradation
vsr00350  Tyrosine metabolism
vsr00470  D-Amino acid metabolism
vsr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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