KEGG   PATHWAY: gkn00020
Entry
gkn00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Gallaecimonas kandeliae
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
gkn00020  Citrate cycle (TCA cycle)
gkn00020

Module
gkn_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gkn00020]
gkn_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gkn00020]
gkn_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gkn00020]
gkn_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gkn00020]
gkn_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gkn00020]
Other DBs
GO: 0006099
Organism
Gallaecimonas kandeliae [GN:gkn]
Gene
PVT67_07460  citrate synthase [KO:K01647] [EC:2.3.3.1]
PVT67_13020  citrate/2-methylcitrate synthase [KO:K01647] [EC:2.3.3.1]
PVT67_16395  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
PVT67_02390  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
PVT67_08420  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PVT67_12835  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
PVT67_07485  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
PVT67_07490  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
PVT67_02350  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PVT67_07500  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
PVT67_07495  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
PVT67_07475  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PVT67_07480  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
PVT67_07465  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
PVT67_07470  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
PVT67_07760  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
PVT67_06120  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PVT67_02420  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PVT67_01180  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
PVT67_02340  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
PVT67_10915  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
PVT67_10910  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
PVT67_02345  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
PVT67_10905  dihydrolipoamide acetyltransferase family protein [KO:K00627] [EC:2.3.1.12]
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
gkn00010  Glycolysis / Gluconeogenesis
gkn00053  Ascorbate and aldarate metabolism
gkn00061  Fatty acid biosynthesis
gkn00071  Fatty acid degradation
gkn00190  Oxidative phosphorylation
gkn00220  Arginine biosynthesis
gkn00250  Alanine, aspartate and glutamate metabolism
gkn00280  Valine, leucine and isoleucine degradation
gkn00350  Tyrosine metabolism
gkn00470  D-Amino acid metabolism
gkn00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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