KEGG   PATHWAY: pory00020
Entry
pory00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudomonas oryziphila
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
pory00020  Citrate cycle (TCA cycle)
pory00020

Module
pory_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pory00020]
pory_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pory00020]
pory_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pory00020]
pory_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pory00020]
pory_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pory00020]
Other DBs
GO: 0006099
Organism
Pseudomonas oryziphila [GN:pory]
Gene
EJA05_19425  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
EJA05_08965  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
EJA05_10195  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
EJA05_17970  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
EJA05_17975  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
EJA05_19400  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
EJA05_19395  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
EJA05_19390  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EJA05_20250  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EJA05_27945  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EJA05_19380  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
EJA05_19385  succinyl-CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
EJA05_00570  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
EJA05_19410  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
EJA05_19405  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
EJA05_19420  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
EJA05_19415  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
EJA05_23350  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
EJA05_22835  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
EJA05_07380  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
EJA05_10605  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
EJA05_18180  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
EJA05_21000  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
EJA05_23970  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
EJA05_08995  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
EJA05_27840  acetyl-CoA carboxylase biotin carboxylase subunit [KO:K01959] [EC:6.4.1.1]
EJA05_27835  oadA; oxaloacetate decarboxylase subunit alpha [KO:K01960] [EC:6.4.1.1]
EJA05_01330  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
EJA05_01850  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
EJA05_04920  mdeB; alpha-ketoglutarate dehydrogenase [KO:K00163] [EC:1.2.4.1]
EJA05_25055  acetoin dehydrogenase dihydrolipoyllysine-residue acetyltransferase subunit [KO:K00627] [EC:2.3.1.12]
EJA05_01845  aceF; dihydrolipoyllysine-residue acetyltransferase [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
pory00010  Glycolysis / Gluconeogenesis
pory00053  Ascorbate and aldarate metabolism
pory00061  Fatty acid biosynthesis
pory00071  Fatty acid degradation
pory00190  Oxidative phosphorylation
pory00220  Arginine biosynthesis
pory00250  Alanine, aspartate and glutamate metabolism
pory00280  Valine, leucine and isoleucine degradation
pory00350  Tyrosine metabolism
pory00470  D-Amino acid metabolism
pory00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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