KEGG   PATHWAY: ppj00020
Entry
ppj00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudomonas plecoglossicida
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
ppj00020  Citrate cycle (TCA cycle)
ppj00020

Module
ppj_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ppj00020]
ppj_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ppj00020]
ppj_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ppj00020]
ppj_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ppj00020]
ppj_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ppj00020]
Other DBs
GO: 0006099
Organism
Pseudomonas plecoglossicida [GN:ppj]
Gene
RK21_00906  type II citrate synthase [KO:K01647] [EC:2.3.3.1]
RK21_03318  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
RK21_03107  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
RK21_01180  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
RK21_01181  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
RK21_00911  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
RK21_00912  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
RK21_00692  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
RK21_00913  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
RK21_05006  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
RK21_00915  succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
RK21_00914  succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
RK21_05244  acetyl-CoA hydrolase [KO:K18118] [EC:2.8.3.18]
RK21_00909  succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
RK21_00910  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
RK21_00907  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
RK21_00908  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
RK21_00229  tartrate/fumarate subfamily Fe-S type hydro-lyase subunit alpha [KO:K01676] [EC:4.2.1.2]
RK21_03645  fumarate hydratase [KO:K01679] [EC:4.2.1.2]
RK21_04024  fumarate hydratase [KO:K01679] [EC:4.2.1.2]
RK21_04358  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
RK21_00514  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
RK21_04198  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
RK21_01664  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
RK21_03308  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
RK21_04985  pyruvate carboxylase subunit A [KO:K01959] [EC:6.4.1.1]
RK21_04984  pyruvate carboxylase subunit B [KO:K01960] [EC:6.4.1.1]
RK21_04774  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
RK21_04680  pyruvate dehydrogenase subunit E1 [KO:K00163] [EC:1.2.4.1]
RK21_04452  branched-chain alpha-keto acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
RK21_04682  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
ppj00010  Glycolysis / Gluconeogenesis
ppj00053  Ascorbate and aldarate metabolism
ppj00061  Fatty acid biosynthesis
ppj00071  Fatty acid degradation
ppj00190  Oxidative phosphorylation
ppj00220  Arginine biosynthesis
ppj00250  Alanine, aspartate and glutamate metabolism
ppj00280  Valine, leucine and isoleucine degradation
ppj00350  Tyrosine metabolism
ppj00470  D-Amino acid metabolism
ppj00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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