KEGG   PATHWAY: pum00020
Entry
pum00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudomonas umsongensis
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
pum00020  Citrate cycle (TCA cycle)
pum00020

Module
pum_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pum00020]
pum_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pum00020]
pum_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pum00020]
pum_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pum00020]
pum_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pum00020]
Other DBs
GO: 0006099
Organism
Pseudomonas umsongensis [GN:pum]
Gene
HGP31_08575  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
HGP31_09335  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
HGP31_14225  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
HGP31_16915  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
HGP31_20215  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HGP31_20225  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HGP31_08600  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
HGP31_08605  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
HGP31_00470  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HGP31_08610  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HGP31_14020  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HGP31_08620  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
HGP31_08615  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
HGP31_01110  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
HGP31_08590  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HGP31_08595  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
HGP31_08580  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
HGP31_08585  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
HGP31_25135  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
HGP31_23635  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
HGP31_18095  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
HGP31_26315  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
HGP31_21195  acetyl-CoA carboxylase biotin carboxylase subunit [KO:K01959] [EC:6.4.1.1]
HGP31_21190  oadA; sodium-extruding oxaloacetate decarboxylase subunit alpha [KO:K01960] [EC:6.4.1.1]
HGP31_01620  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
HGP31_02575  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
HGP31_15520  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
HGP31_15515  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
HGP31_02570  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
HGP31_15510  2-oxo acid dehydrogenase subunit E2 [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
pum00010  Glycolysis / Gluconeogenesis
pum00053  Ascorbate and aldarate metabolism
pum00061  Fatty acid biosynthesis
pum00071  Fatty acid degradation
pum00190  Oxidative phosphorylation
pum00220  Arginine biosynthesis
pum00250  Alanine, aspartate and glutamate metabolism
pum00280  Valine, leucine and isoleucine degradation
pum00350  Tyrosine metabolism
pum00470  D-Amino acid metabolism
pum00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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