KEGG   PATHWAY: ppf00020
Entry
ppf00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudomonas putida F1
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
ppf00020  Citrate cycle (TCA cycle)
ppf00020

Module
ppf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ppf00020]
ppf_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ppf00020]
ppf_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ppf00020]
ppf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ppf00020]
ppf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ppf00020]
Other DBs
GO: 0006099
Organism
Pseudomonas putida F1 [GN:ppf]
Gene
Pput_1660  citrate synthase [KO:K01647] [EC:2.3.3.1]
Pput_3627  aconitase [KO:K01681] [EC:4.2.1.3]
Pput_3431  aconitase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
Pput_1822  isocitrate dehydrogenase (NADP) [KO:K00031] [EC:1.1.1.42]
Pput_1821  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Pput_1665  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
Pput_1666  2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
Pput_1450  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Pput_1667  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Pput_5274  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Pput_1669  succinyl-CoA synthetase (ADP-forming) alpha subunit [KO:K01902] [EC:6.2.1.5]
Pput_1668  succinyl-CoA synthetase (ADP-forming) beta subunit [KO:K01903] [EC:6.2.1.5]
Pput_0172  Acetyl-CoA hydrolase [KO:K18118] [EC:2.8.3.18]
Pput_1663  succinate dehydrogenase subunit A [KO:K00239] [EC:1.3.5.1]
Pput_1664  succinate dehydrogenase subunit B [KO:K00240] [EC:1.3.5.1]
Pput_1661  succinate dehydrogenase subunit C [KO:K00241]
Pput_1662  succinate dehydrogenase subunit D [KO:K00242]
Pput_0936  fumarase [KO:K01676] [EC:4.2.1.2]
Pput_0984  fumarase [KO:K01679] [EC:4.2.1.2]
Pput_3959  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
Pput_0687  malate dehydrogenase (NAD) [KO:K00024] [EC:1.1.1.37]
Pput_0779  malate--quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
Pput_1279  malate--quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
Pput_2767  malate--quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
Pput_5256  acetyl-CoA carboxylase carboxyltransferase subunit alpha [KO:K01959] [EC:6.4.1.1]
Pput_5255  oxaloacetate decarboxylase alpha subunit [KO:K01960] [EC:6.4.1.1]
Pput_0268  Phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Pput_0364  2-oxo-acid dehydrogenase E1 subunit, homodimeric type [KO:K00163] [EC:1.2.4.1]
Pput_0363  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
Pput_0592  alpha/beta hydrolase fold protein [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
ppf00010  Glycolysis / Gluconeogenesis
ppf00053  Ascorbate and aldarate metabolism
ppf00061  Fatty acid biosynthesis
ppf00071  Fatty acid degradation
ppf00190  Oxidative phosphorylation
ppf00220  Arginine biosynthesis
ppf00250  Alanine, aspartate and glutamate metabolism
ppf00280  Valine, leucine and isoleucine degradation
ppf00350  Tyrosine metabolism
ppf00470  D-Amino acid metabolism
ppf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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