KEGG   PATHWAY: yal00020
Entry
yal00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Yersinia aldovae
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
yal00020  Citrate cycle (TCA cycle)
yal00020

Module
yal_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:yal00020]
yal_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:yal00020]
yal_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:yal00020]
yal_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:yal00020]
yal_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:yal00020]
Other DBs
GO: 0006099
Organism
Yersinia aldovae [GN:yal]
Gene
AT01_3798  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
AT01_485  acnA; aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
AT01_3231  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
AT01_853  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
AT01_3803  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
AT01_3804  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
AT01_2348  pyridine nucleotide-disulfide oxidoreductase family protein [KO:K00382] [EC:1.8.1.4]
AT01_3227  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
AT01_3806  sucD; succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
AT01_3805  sucC; succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
AT01_3801  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
AT01_3802  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
AT01_3799  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
AT01_3800  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
AT01_2899  frdA; fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
AT01_2898  frdB; fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
AT01_2897  frdC; fumarate reductase subunit C [KO:K00246]
AT01_2896  frdD; fumarate reductase subunit D [KO:K00247]
AT01_3332  hydrolyase, tartrate alpha subunit/fumarate, Fe-S type domain protein [KO:K01676] [EC:4.2.1.2]
AT01_1091  hydrolyase, tartrate beta subunit/fumarate, Fe-S type domain protein [KO:K01676] [EC:4.2.1.2]
AT01_438  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
AT01_2948  mdh; malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
AT01_2688  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
AT01_3225  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
AT01_3226  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
AT01_350  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
yal00010  Glycolysis / Gluconeogenesis
yal00053  Ascorbate and aldarate metabolism
yal00061  Fatty acid biosynthesis
yal00071  Fatty acid degradation
yal00190  Oxidative phosphorylation
yal00220  Arginine biosynthesis
yal00250  Alanine, aspartate and glutamate metabolism
yal00280  Valine, leucine and isoleucine degradation
yal00350  Tyrosine metabolism
yal00470  D-Amino acid metabolism
yal00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system