KEGG   PATHWAY: piz00020
Entry
piz00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudomonas izuensis
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
piz00020  Citrate cycle (TCA cycle)
piz00020

Module
piz_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:piz00020]
piz_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:piz00020]
piz_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:piz00020]
piz_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:piz00020]
piz_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:piz00020]
Other DBs
GO: 0006099
Organism
Pseudomonas izuensis [GN:piz]
Gene
LAB08_R45190  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
LAB08_R16720  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
LAB08_R24760  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
LAB08_R29080  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
LAB08_R32180  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
LAB08_R39310  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
LAB08_R39330  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
LAB08_R36020  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
LAB08_R45140  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
LAB08_R45130  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
LAB08_R60120  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LAB08_R32670  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LAB08_R45120  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LAB08_R45100  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
LAB08_R45110  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
LAB08_R01050  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
LAB08_R45160  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LAB08_R45150  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LAB08_R45180  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
LAB08_R45170  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
LAB08_R49090  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
LAB08_R07740  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
LAB08_R14800  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
LAB08_R51230  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
LAB08_R36860  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
LAB08_R59840  acetyl-CoA carboxylase biotin carboxylase subunit [KO:K01959] [EC:6.4.1.1]
LAB08_R59830  oadA; sodium-extruding oxaloacetate decarboxylase subunit alpha [KO:K01960] [EC:6.4.1.1]
LAB08_R02350  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
LAB08_R04220  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
LAB08_R22940  mdeB; alpha-ketoglutarate dehydrogenase [KO:K00163] [EC:1.2.4.1]
LAB08_R04210  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
piz00010  Glycolysis / Gluconeogenesis
piz00053  Ascorbate and aldarate metabolism
piz00061  Fatty acid biosynthesis
piz00071  Fatty acid degradation
piz00190  Oxidative phosphorylation
piz00220  Arginine biosynthesis
piz00250  Alanine, aspartate and glutamate metabolism
piz00280  Valine, leucine and isoleucine degradation
piz00350  Tyrosine metabolism
piz00470  D-Amino acid metabolism
piz00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system