KEGG   PATHWAY: yew00020
Entry
yew00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Yersinia enterocolitica WA
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
yew00020  Citrate cycle (TCA cycle)
yew00020

Module
yew_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:yew00020]
yew_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:yew00020]
yew_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:yew00020]
yew_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:yew00020]
yew_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:yew00020]
Other DBs
GO: 0006099
Organism
Yersinia enterocolitica WA [GN:yew]
Gene
CH47_2309  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
CH47_1402  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
CH47_2780  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
CH47_1122  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
CH47_2304  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
CH47_2303  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
CH47_2783  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CH47_3366  putative dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
CH47_2301  sucD; succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
CH47_2302  sucC; succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
CH47_2306  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CH47_2305  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CH47_2308  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
CH47_2307  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
CH47_3110  frdA; fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
CH47_3111  frdB; fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
CH47_3112  frdC; fumarate reductase subunit C [KO:K00246]
CH47_3113  frdD; fumarate reductase subunit D [KO:K00247]
CH47_2671  fumA; fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
CH47_3695  fumB; fumarate hydratase class I, anaerobic [KO:K01676] [EC:4.2.1.2]
CH47_1452  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
CH47_3061  mdh; malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
CH47_3745  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
CH47_2785  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
CH47_2784  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
CH47_1534  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
yew00010  Glycolysis / Gluconeogenesis
yew00053  Ascorbate and aldarate metabolism
yew00061  Fatty acid biosynthesis
yew00071  Fatty acid degradation
yew00190  Oxidative phosphorylation
yew00220  Arginine biosynthesis
yew00250  Alanine, aspartate and glutamate metabolism
yew00280  Valine, leucine and isoleucine degradation
yew00350  Tyrosine metabolism
yew00470  D-Amino acid metabolism
yew00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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