KEGG   PATHWAY: ppt00020
Entry
ppt00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudomonas putida S16
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
ppt00020  Citrate cycle (TCA cycle)
ppt00020

Module
ppt_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ppt00020]
ppt_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ppt00020]
ppt_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ppt00020]
ppt_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ppt00020]
ppt_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ppt00020]
Other DBs
GO: 0006099
Organism
Pseudomonas putida S16 [GN:ppt]
Gene
PPS_3595  type II citrate synthase [KO:K01647] [EC:2.3.3.1]
PPS_1677  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
PPS_1921  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
PPS_2394  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
PPS_3421  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
PPS_3422  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
PPS_3590  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
PPS_3589  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
PPS_3588  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PPS_3808  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PPS_5215  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
PPS_3586  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
PPS_3587  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
PPS_0120  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
PPS_3592  succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PPS_3591  succinate dehydrogenase, iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
PPS_3594  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
PPS_3593  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
PPS_4295  tartrate/fumarate subfamily Fe-S type hydro-lyase, alpha subunit [KO:K01676] [EC:4.2.1.2]
PPS_0974  fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PPS_1396  fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PPS_0655  lactate/malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PPS_0808  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PPS_2991  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PPS_3972  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PPS_1684  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PPS_5196  pyruvate carboxylase subunit A [KO:K01959] [EC:6.4.1.1]
PPS_5195  pyruvate carboxylase subunit B [KO:K01960] [EC:6.4.1.1]
PPS_0246  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
PPS_0334  pyruvate dehydrogenase subunit E1 [KO:K00163] [EC:1.2.4.1]
PPS_0550  branched-chain alpha-keto acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
PPS_0333  dihydrolipoamide 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
ppt00010  Glycolysis / Gluconeogenesis
ppt00053  Ascorbate and aldarate metabolism
ppt00061  Fatty acid biosynthesis
ppt00071  Fatty acid degradation
ppt00190  Oxidative phosphorylation
ppt00220  Arginine biosynthesis
ppt00250  Alanine, aspartate and glutamate metabolism
ppt00280  Valine, leucine and isoleucine degradation
ppt00350  Tyrosine metabolism
ppt00470  D-Amino acid metabolism
ppt00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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