KEGG   PATHWAY: yca00020
Entry
yca00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Yersinia canariae
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
yca00020  Citrate cycle (TCA cycle)
yca00020

Module
yca_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:yca00020]
yca_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:yca00020]
yca_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:yca00020]
yca_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:yca00020]
yca_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:yca00020]
Other DBs
GO: 0006099
Organism
Yersinia canariae [GN:yca]
Gene
F0T03_15370  citrate synthase [KO:K01647] [EC:2.3.3.1]
F0T03_11180  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
F0T03_04115  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
F0T03_09200  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
F0T03_15345  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
F0T03_15340  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
F0T03_04095  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
F0T03_00645  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
F0T03_15330  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
F0T03_15335  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
F0T03_15355  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
F0T03_15350  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
F0T03_15365  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
F0T03_15360  sdhD; succinate dehydrogenase membrane anchor subunit [KO:K00242]
F0T03_02375  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
F0T03_02370  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
F0T03_02365  frdC; fumarate reductase subunit FrdC [KO:K00246]
F0T03_02360  frdD; fumarate reductase subunit FrdD [KO:K00247]
F0T03_21010  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
F0T03_04740  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
F0T03_10930  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
F0T03_02645  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
F0T03_20755  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
F0T03_04085  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
F0T03_04090  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
F0T03_10560  nifJ; pyruvate: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
yca00010  Glycolysis / Gluconeogenesis
yca00053  Ascorbate and aldarate metabolism
yca00061  Fatty acid biosynthesis
yca00071  Fatty acid degradation
yca00190  Oxidative phosphorylation
yca00220  Arginine biosynthesis
yca00250  Alanine, aspartate and glutamate metabolism
yca00280  Valine, leucine and isoleucine degradation
yca00350  Tyrosine metabolism
yca00470  D-Amino acid metabolism
yca00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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