KEGG   PATHWAY: yel00020
Entry
yel00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Yersinia enterocolitica LC20
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
yel00020  Citrate cycle (TCA cycle)
yel00020

Module
yel_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:yel00020]
yel_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:yel00020]
yel_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:yel00020]
yel_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:yel00020]
yel_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:yel00020]
Other DBs
GO: 0006099
Organism
Yersinia enterocolitica LC20 [GN:yel]
Gene
LC20_01675  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
LC20_04457  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
LC20_03306  isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
LC20_01682  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
LC20_01683  dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
LC20_04469  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LC20_05121  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LC20_01685  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
LC20_01684  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
LC20_01680  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LC20_01681  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LC20_01678  succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
LC20_01679  sdhD; succinate:quinone oxidoreductase subunit D [KO:K00242]
LC20_04819  fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
LC20_04820  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
LC20_04821  fumarate reductase subunit FrdC [KO:K00246]
LC20_04822  fumarate reductase subunit FrdD [KO:K00247]
LC20_00195  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
LC20_04311  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
LC20_02692  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
LC20_08780  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
LC20_00264  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
LC20_04471  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
LC20_04470  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
yel00010  Glycolysis / Gluconeogenesis
yel00053  Ascorbate and aldarate metabolism
yel00061  Fatty acid biosynthesis
yel00071  Fatty acid degradation
yel00190  Oxidative phosphorylation
yel00220  Arginine biosynthesis
yel00250  Alanine, aspartate and glutamate metabolism
yel00280  Valine, leucine and isoleucine degradation
yel00350  Tyrosine metabolism
yel00470  D-Amino acid metabolism
yel00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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