KEGG   PATHWAY: ypt00020
Entry
ypt00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Yersinia pestis A1122
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
ypt00020  Citrate cycle (TCA cycle)
ypt00020

Module
ypt_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ypt00020]
ypt_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ypt00020]
ypt_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ypt00020]
ypt_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ypt00020]
ypt_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ypt00020]
Other DBs
GO: 0006099
Organism
Yersinia pestis A1122 [GN:ypt]
Gene
A1122_19395  gltA; type II citrate synthase [KO:K01647] [EC:2.3.3.1]
A1122_15040  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
A1122_08830  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
A1122_17675  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
A1122_19420  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
A1122_19425  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
A1122_06225  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
A1122_08815  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
A1122_19435  succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
A1122_19430  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
A1122_19410  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
A1122_19415  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
A1122_19400  sdhC; succinate dehydrogenase cytochrome b556 large membrane subunit [KO:K00241]
A1122_19405  sdhD; succinate dehydrogenase cytochrome b556 small membrane subunit [KO:K00242]
A1122_03330  fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
A1122_03335  fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
A1122_03340  fumarate reductase subunit C [KO:K00246]
A1122_03345  fumarate reductase subunit D [KO:K00247]
A1122_09260  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
A1122_14825  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
A1122_08320  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
A1122_04450  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
A1122_08805  aceE; pyruvate dehydrogenase subunit E1 [KO:K00163] [EC:1.2.4.1]
A1122_08810  dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
A1122_14475  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
ypt00010  Glycolysis / Gluconeogenesis
ypt00053  Ascorbate and aldarate metabolism
ypt00061  Fatty acid biosynthesis
ypt00071  Fatty acid degradation
ypt00190  Oxidative phosphorylation
ypt00220  Arginine biosynthesis
ypt00250  Alanine, aspartate and glutamate metabolism
ypt00280  Valine, leucine and isoleucine degradation
ypt00350  Tyrosine metabolism
ypt00470  D-Amino acid metabolism
ypt00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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