KEGG   PATHWAY: ypr00020
Entry
ypr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Yersinia pseudotuberculosis EP2/+
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
ypr00020  Citrate cycle (TCA cycle)
ypr00020

Module
ypr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ypr00020]
ypr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ypr00020]
ypr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ypr00020]
ypr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ypr00020]
ypr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ypr00020]
Other DBs
GO: 0006099
Organism
Yersinia pseudotuberculosis EP2/+ [GN:ypr]
Gene
BZ20_859  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
BZ20_4107  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
BZ20_1369  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
BZ20_3773  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
BZ20_854  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
BZ20_853  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
BZ20_1371  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
BZ20_2004  glucose inhibited division A family protein [KO:K00382] [EC:1.8.1.4]
BZ20_851  sucD; succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
BZ20_852  sucC; succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
BZ20_856  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
BZ20_855  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
BZ20_858  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
BZ20_857  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
BZ20_1698  frdA; fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
BZ20_1699  frdB; fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
BZ20_1700  frdC; fumarate reductase subunit C [KO:K00246]
BZ20_1701  frdD; fumarate reductase subunit D [KO:K00247]
BZ20_1262  fumA; fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
BZ20_4066  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
BZ20_1648  mdh; malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
BZ20_2332  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
BZ20_1373  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
BZ20_1372  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
BZ20_3999  nifJ; ferredoxin (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
ypr00010  Glycolysis / Gluconeogenesis
ypr00053  Ascorbate and aldarate metabolism
ypr00061  Fatty acid biosynthesis
ypr00071  Fatty acid degradation
ypr00190  Oxidative phosphorylation
ypr00220  Arginine biosynthesis
ypr00250  Alanine, aspartate and glutamate metabolism
ypr00280  Valine, leucine and isoleucine degradation
ypr00350  Tyrosine metabolism
ypr00470  D-Amino acid metabolism
ypr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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