KEGG   PATHWAY: pay00020
Entry
pay00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Photorhabdus asymbiotica
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
pay00020  Citrate cycle (TCA cycle)
pay00020

Module
pay_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pay00020]
pay_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pay00020]
pay_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pay00020]
pay_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pay00020]
pay_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pay00020]
Other DBs
GO: 0006099
Organism
Photorhabdus asymbiotica [GN:pay]
Gene
PAU_02979  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
PAU_02077  acnA; aconitate hydrase 1 [KO:K01681] [EC:4.2.1.3]
PAU_01141  acnB; aconitate hydratase 2 (citrate hydro-lyase 2) (aconitase 2) [KO:K01682] [EC:4.2.1.3 4.2.1.99]
PAU_01740  icdA; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PAU_02974  sucA; 2-oxoglutarate dehydrogenase e1 component [KO:K00164] [EC:1.2.4.2]
PAU_02973  sucB; dihydrolipoamide succinyltransferase component of 2-oxoglutarat dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
PAU_01140  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PAU_02971  sucD; succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
PAU_02972  sucC; succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
PAU_02976  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PAU_02975  sdhB; succinate dehydrogenase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
PAU_02978  sdhC; succinate dehydrogenase cytochrome b-556 subunit [KO:K00241]
PAU_02977  sdhD; succinate dehydrogenase hydrophobic membrane anchor protein [KO:K00242]
PAU_03748  frdA; fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
PAU_03749  frdB; fumarate reductase iron-sulfur protein [KO:K00245] [EC:1.3.5.1]
PAU_03750  frdC; fumarate reductase 15 kda hydrophobic protein [KO:K00246]
PAU_03751  frdD; fumarate reductase 13 kda hydrophobic protein [KO:K00247]
PAU_02159  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
PAU_04048  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PAU_00083  pckA; phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
PAU_01138  aceE; pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
PAU_01139  aceF; dihydrolipoamide acetyltransferase component of pyruvate dehydrogenas complex (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
pay00010  Glycolysis / Gluconeogenesis
pay00053  Ascorbate and aldarate metabolism
pay00061  Fatty acid biosynthesis
pay00071  Fatty acid degradation
pay00190  Oxidative phosphorylation
pay00220  Arginine biosynthesis
pay00250  Alanine, aspartate and glutamate metabolism
pay00280  Valine, leucine and isoleucine degradation
pay00350  Tyrosine metabolism
pay00470  D-Amino acid metabolism
pay00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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