KEGG   PATHWAY: set00020
Entry
set00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Salmonella enterica subsp. enterica serovar Enteritidis P125109
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
set00020  Citrate cycle (TCA cycle)
set00020

Module
set_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:set00020]
set_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:set00020]
set_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:set00020]
set_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:set00020]
set_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:set00020]
set_M00982  Methylcitrate cycle [PATH:set00020]
Other DBs
GO: 0006099
Organism
Salmonella enterica subsp. enterica serovar Enteritidis P125109 [GN:set]
Gene
SEN0156  aceE; pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
SEN0157  aceF; dihydrolipoamide acetyltransferase component (E2) of pyruvate dehydrogenase [KO:K00627] [EC:2.3.1.12]
SEN0158  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
SEN0162  acnB; aconitate hydratase 2 (citrate hydro-lyase 2) [KO:K01682] [EC:4.2.1.3 4.2.1.99]
SEN0352  prpC; methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
SEN0680  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
SEN0682  sdhC; succinate dehydrogenase cytochrome b-556 subunit [KO:K00241]
SEN0683  sdhD; succinate dehydrogenase hydrophobic membrane anchor protein [KO:K00242]
SEN0684  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
SEN0685  sdhB; succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
SEN0686  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
SEN0687  sucB; dihydrolipoamide succinyltransferase component (E2) [KO:K00658] [EC:2.3.1.61]
SEN0688  sucC; succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
SEN0689  sucD; succinyl-CoA synthetase alpha chain [KO:K01902] [EC:6.2.1.5]
SEN0706  [KO:K01678] [EC:4.2.1.2]
SEN0707  [KO:K01677] [EC:4.2.1.2]
SEN1321  acnA; aconitate hydratase 1 (citrate hydro-lyase 1) [KO:K27802]
SEN1401  nifJ; probable pyruvate-flavodoxin oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
SEN1579  fumC; Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
SEN1581  fumA; Fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
SEN1657  orf70; pathogenicity island protein [KO:K01675]
SEN1811  icdA; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
SEN3192  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
SEN3326  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
SEN4072  fumB; fumarate hydratase class I [KO:K01676] [EC:4.2.1.2]
SEN4110  frdD; fumarate reductase complex subunit D; membrane anchor polypeptide [KO:K00247]
SEN4111  frdC; fumarate reductase complex subunit C; membrane anchor polypeptide [KO:K00246]
SEN4112  frdB; fumarate reductase, iron-sulfur protein [KO:K00245] [EC:1.3.5.1]
SEN4113  frdA; fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
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
set00010  Glycolysis / Gluconeogenesis
set00053  Ascorbate and aldarate metabolism
set00061  Fatty acid biosynthesis
set00071  Fatty acid degradation
set00190  Oxidative phosphorylation
set00220  Arginine biosynthesis
set00250  Alanine, aspartate and glutamate metabolism
set00280  Valine, leucine and isoleucine degradation
set00350  Tyrosine metabolism
set00470  D-Amino acid metabolism
set00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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