KEGG   PATHWAY: seb00020
Entry
seb00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Salmonella enterica subsp. enterica serovar Typhimurium ST4/74
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
seb00020  Citrate cycle (TCA cycle)
seb00020

Module
seb_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:seb00020]
seb_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:seb00020]
seb_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:seb00020]
seb_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:seb00020]
seb_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:seb00020]
Other DBs
GO: 0006099
Organism
Salmonella enterica subsp. enterica serovar Typhimurium ST4/74 [GN:seb]
Gene
STM474_0753  gltA; type II citrate synthase [KO:K01647] [EC:2.3.3.1]
STM474_0384  prpC; methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
STM474_1727  acnA; aconitate hydratase [KO:K27802] [EC:4.2.1.3 4.2.1.99]
STM474_0167  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
STM474_1236  icdA; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
STM474_0759  sucA; alpha-ketoglutarate decarboxylase [KO:K00164] [EC:1.2.4.2]
STM474_0760  sucB; dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
STM474_0162  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
STM474_0762  sucD; succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
STM474_0761  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
STM474_0757  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
STM474_0758  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
STM474_0755  sdhC; succinate dehydrogenase cytochrome b556 large membrane subunit [KO:K00241]
STM474_0756  sdhD; succinate dehydrogenase cytochrome b556 small membrane subunit [KO:K00242]
STM474_4540  frdA; fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
STM474_4539  frdB; fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
STM474_4538  frdC; fumarate reductase subunit C [KO:K00246]
STM474_4537  frdD; fumarate reductase subunit D [KO:K00247]
STM474_1475  fumA; fumarate hydratase class I, anaerobic [KO:K01676] [EC:4.2.1.2]
STM474_4496  fumB; fumarase B [KO:K01676] [EC:4.2.1.2]
STM474_0787  fumarate hydratase [KO:K01677] [EC:4.2.1.2]
STM474_0786  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, beta region [KO:K01678] [EC:4.2.1.2]
STM474_1476  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
STM474_1393  ydhz; Uncharacterized protein ydhZ [KO:K01675] [EC:4.2.1.2]
STM474_3519  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
STM474_3667  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
STM474_0160  aceE; pyruvate dehydrogenase subunit E1 [KO:K00163] [EC:1.2.4.1]
STM474_0161  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
STM474_1663  nifJ; putative pyruvate-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
seb00010  Glycolysis / Gluconeogenesis
seb00053  Ascorbate and aldarate metabolism
seb00061  Fatty acid biosynthesis
seb00071  Fatty acid degradation
seb00190  Oxidative phosphorylation
seb00220  Arginine biosynthesis
seb00250  Alanine, aspartate and glutamate metabolism
seb00280  Valine, leucine and isoleucine degradation
seb00350  Tyrosine metabolism
seb00470  D-Amino acid metabolism
seb00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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