KEGG   PATHWAY: sfv00020
Entry
sfv00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Shigella flexneri 8401 (serotype 5b)
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
sfv00020  Citrate cycle (TCA cycle)
sfv00020

Module
sfv_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:sfv00020]
sfv_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:sfv00020]
sfv_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:sfv00020]
sfv_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:sfv00020]
sfv_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:sfv00020]
Other DBs
GO: 0006099
Organism
Shigella flexneri 8401 (serotype 5b) [GN:sfv]
Gene
SFV_0105  aceE; pyruvate dehydrogenase (decarboxylase component) [KO:K00163] [EC:1.2.4.1]
SFV_0106  aceF; pyruvate dehydrogenase (dihydrolipoyltransacetylase component) [KO:K00627] [EC:2.3.1.12]
SFV_0107  lpdA; dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
SFV_0109  acnB; aconitate hydrase B [KO:K01682] [EC:4.2.1.3 4.2.1.99]
SFV_0607  sucD; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
SFV_0608  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
SFV_0609  sucB; 2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
SFV_0610  sucA; 2-oxoglutarate dehydrogenase [KO:K00164] [EC:1.2.4.2]
SFV_0611  sdhB; succinate dehydrogenase, iron sulfur protein [KO:K00240] [EC:1.3.5.1]
SFV_0612  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
SFV_0613  sdhD; succinate dehydrogenase, hydrophobic subunit [KO:K00242]
SFV_0614  sdhC; succinate dehydrogenase, cytochrome b556 [KO:K00241]
SFV_0615  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
SFV_1171  icdA; isocitrate dehydrogenase, specific for NADP+ [KO:K00031] [EC:1.1.1.42]
SFV_1289  acnA; aconitate hydrase 1 [KO:K27802]
SFV_1627  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
SFV_1628  fumA; Fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
SFV_1697  [KO:K01675]
SFV_1811  ydbK; putative oxidoreductase, Fe-S subunit [KO:K03737] [EC:1.2.7.1 1.2.7.-]
SFV_2981  yggD; putative transcriptional regulator [KO:K01774]
SFV_3263  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
SFV_3408  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
SFV_4108  fumB; Fumarate hydratase class I, anaerobic [KO:K01676] [EC:4.2.1.2]
SFV_4310  frdD; fumarate reductase, anaerobic, membrane anchor polypeptide [KO:K00247]
SFV_4311  frdC; fumarate reductase, anaerobic, membrane anchor polypeptide [KO:K00246]
SFV_4312  frdB; fumarate reductase, anaerobic, iron-sulfur protein subunit [KO:K00245] [EC:1.3.5.1]
SFV_4313  frdA; fumarate reductase, anaerobic, 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
sfv00010  Glycolysis / Gluconeogenesis
sfv00053  Ascorbate and aldarate metabolism
sfv00061  Fatty acid biosynthesis
sfv00071  Fatty acid degradation
sfv00190  Oxidative phosphorylation
sfv00220  Arginine biosynthesis
sfv00250  Alanine, aspartate and glutamate metabolism
sfv00280  Valine, leucine and isoleucine degradation
sfv00350  Tyrosine metabolism
sfv00470  D-Amino acid metabolism
sfv00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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