KEGG   PATHWAY: vmt00020
Entry
vmt00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Vibrio metoecus
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
vmt00020  Citrate cycle (TCA cycle)
vmt00020

Module
vmt_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vmt00020]
vmt_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vmt00020]
vmt_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vmt00020]
vmt_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vmt00020]
vmt_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vmt00020]
Other DBs
GO: 0006099
Organism
Vibrio metoecus [GN:vmt]
Gene
QYQ96_03975  citrate synthase [KO:K01647] [EC:2.3.3.1]
QYQ96_10845  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
QYQ96_08200  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
QYQ96_04000  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
QYQ96_04005  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
QYQ96_01275  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
QYQ96_02420  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
QYQ96_04015  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
QYQ96_04010  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
QYQ96_03990  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
QYQ96_03995  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
QYQ96_03980  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
QYQ96_03985  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
QYQ96_01205  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
QYQ96_01200  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
QYQ96_01195  frdC; fumarate reductase subunit FrdC [KO:K00246]
QYQ96_01190  frdD; fumarate reductase subunit FrdD [KO:K00247]
QYQ96_07380  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
QYQ96_11620  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
QYQ96_00815  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
QYQ96_02410  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
QYQ96_02415  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
QYQ96_14585  nifJ; pyruvate:ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
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
vmt00010  Glycolysis / Gluconeogenesis
vmt00053  Ascorbate and aldarate metabolism
vmt00061  Fatty acid biosynthesis
vmt00071  Fatty acid degradation
vmt00190  Oxidative phosphorylation
vmt00220  Arginine biosynthesis
vmt00250  Alanine, aspartate and glutamate metabolism
vmt00280  Valine, leucine and isoleucine degradation
vmt00350  Tyrosine metabolism
vmt00470  D-Amino acid metabolism
vmt00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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