KEGG   PATHWAY: pfl00020
Entry
pfl00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudomonas protegens Pf-5
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
pfl00020  Citrate cycle (TCA cycle)
pfl00020

Module
pfl_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pfl00020]
pfl_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pfl00020]
pfl_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pfl00020]
pfl_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pfl00020]
pfl_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pfl00020]
Other DBs
GO: 0006099
Organism
Pseudomonas protegens Pf-5 [GN:pfl]
Gene
PFL_1713  gltA; citrate synthase I [KO:K01647] [EC:2.3.3.1]
PFL_1929  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
PFL_2633  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
PFL_3888  icd_1; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
PFL_3889  icd_2; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
PFL_1718  sucA; 2-oxoglutarate dehydrogenase, E1 component [KO:K00164] [EC:1.2.4.2]
PFL_1719  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase (succinyl-transferring) complex [KO:K00658] [EC:2.3.1.61]
PFL_2531  bkdC; 2-oxoisovalerate dehydrogenase E3 component, dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PFL_1720  lpdA_1; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PFL_0268  lpdA_2; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PFL_1722  sucD; succinate-CoA ligase, alpha subunit [KO:K01902] [EC:6.2.1.5]
PFL_1721  sucC; succinate-CoA ligase, beta subunit [KO:K01903] [EC:6.2.1.5]
PFL_0112  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
PFL_1716  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PFL_1717  sdhB; succinate dehydrogenase, iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
PFL_1714  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
PFL_1715  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
PFL_4801  putative fumarate hydratase, class I [KO:K01676] [EC:4.2.1.2]
PFL_0907  fumC_1; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
PFL_2140  fumC_2; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
PFL_4328  fumC_3; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
PFL_5134  mqo_2; malate:quinone-oxidoreductase [KO:K00116] [EC:1.1.5.4]
PFL_2427  mqo_1; malate:quinone-oxidoreductase [KO:K00116] [EC:1.1.5.4]
PFL_6158  accC_1; acetyl-CoA carboxylase, biotin carboxylase subunit [KO:K01959] [EC:6.4.1.1]
PFL_6157  oadA; oxaloacetate decarboxylase alpha subunit [KO:K01960] [EC:6.4.1.1]
PFL_0284  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
PFL_3977  aceE_1; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
PFL_0509  aceE_2; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
PFL_2172  acoC; acetoin dehydrogenase E2 component, dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
PFL_0508  aceF; pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form [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
pfl00010  Glycolysis / Gluconeogenesis
pfl00053  Ascorbate and aldarate metabolism
pfl00061  Fatty acid biosynthesis
pfl00071  Fatty acid degradation
pfl00190  Oxidative phosphorylation
pfl00220  Arginine biosynthesis
pfl00250  Alanine, aspartate and glutamate metabolism
pfl00280  Valine, leucine and isoleucine degradation
pfl00350  Tyrosine metabolism
pfl00470  D-Amino acid metabolism
pfl00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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