KEGG   PATHWAY: pari00020
Entry
pari00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Pectobacterium aroidearum
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
pari00020  Citrate cycle (TCA cycle)
pari00020

Module
pari_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pari00020]
pari_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pari00020]
pari_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pari00020]
pari_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pari00020]
pari_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pari00020]
Other DBs
GO: 0006099
Organism
Pectobacterium aroidearum [GN:pari]
Gene
I2D83_01815  citrate synthase [KO:K01647] [EC:2.3.3.1]
I2D83_14730  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
I2D83_15835  citrate synthase [KO:K01647] [EC:2.3.3.1]
I2D83_12705  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
I2D83_04050  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
I2D83_10195  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
I2D83_14720  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
I2D83_15810  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
I2D83_14715  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
I2D83_15805  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
I2D83_03985  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
I2D83_14710  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
I2D83_15795  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
I2D83_15800  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
I2D83_15820  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
I2D83_15815  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
I2D83_15830  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
I2D83_15825  sdhD; succinate dehydrogenase membrane anchor subunit [KO:K00242]
I2D83_02605  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
I2D83_02600  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
I2D83_02595  frdC; fumarate reductase subunit FrdC [KO:K00246]
I2D83_02590  frdD; fumarate reductase subunit FrdD [KO:K00247]
I2D83_17880  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
I2D83_11070  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
I2D83_18900  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
I2D83_07300  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
I2D83_01890  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
I2D83_03975  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
I2D83_03980  aceF; pyruvate dehydrogenase complex dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
I2D83_18180  nifJ; pyruvate: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
pari00010  Glycolysis / Gluconeogenesis
pari00053  Ascorbate and aldarate metabolism
pari00061  Fatty acid biosynthesis
pari00071  Fatty acid degradation
pari00190  Oxidative phosphorylation
pari00220  Arginine biosynthesis
pari00250  Alanine, aspartate and glutamate metabolism
pari00280  Valine, leucine and isoleucine degradation
pari00350  Tyrosine metabolism
pari00470  D-Amino acid metabolism
pari00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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