KEGG   PATHWAY: ppun00020
Entry
ppun00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudomonas putida NBRC 14164
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
ppun00020  Citrate cycle (TCA cycle)
ppun00020

Module
ppun_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ppun00020]
ppun_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ppun00020]
ppun_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ppun00020]
ppun_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ppun00020]
ppun_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ppun00020]
Other DBs
GO: 0006099
Organism
Pseudomonas putida NBRC 14164 [GN:ppun]
Gene
PP4_15640  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
PP4_37360  acnA; aconitase A [KO:K01681] [EC:4.2.1.3]
PP4_34800  acnB; aconitase B [KO:K01682] [EC:4.2.1.3 4.2.1.99]
PP4_17410  icd2; monomeric isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PP4_17420  icd; isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PP4_15690  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
PP4_15700  sucB; 2-oxoglutarate dehydrogenase E2 component [KO:K00658] [EC:2.3.1.61]
PP4_54290  lpd; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PP4_15710  lpd; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PP4_13570  bkdC; dihydrolipoyl dehydrogenase BkdC [KO:K00382] [EC:1.8.1.4]
PP4_15730  sucD; succinyl-CoA synthetase subunit alpha [KO:K01902] [EC:6.2.1.5]
PP4_15720  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
PP4_01470  putative propionyl-CoA--succinate CoA-transferase [KO:K18118] [EC:2.8.3.18]
PP4_15670  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
PP4_15680  sdhB; succinate dehydrogenase iron-sulfur protein subunit [KO:K00240] [EC:1.3.5.1]
PP4_15650  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
PP4_15660  sdhD; succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
PP4_09070  fumA; fumarate hydratase class I [KO:K01676] [EC:4.2.1.2]
PP4_40160  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
PP4_43640  fumC; fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
PP4_46090  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PP4_28880  mqo; malate--quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PP4_45270  mqo; malate--quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PP4_11900  mqo; malate--quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
PP4_54080  pycA; pyruvate carboxylase subunit A [KO:K01959] [EC:6.4.1.1]
PP4_54070  pycB; pyruvate carboxylase subunit B [KO:K01960] [EC:6.4.1.1]
PP4_02720  ppcK; phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
PP4_03690  aceE; pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
PP4_06250  acoC; acetoin dehydrogenase E2 component [KO:K00627] [EC:2.3.1.12]
PP4_03680  aceF; pyruvate dehydrogenase E2 component [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
ppun00010  Glycolysis / Gluconeogenesis
ppun00053  Ascorbate and aldarate metabolism
ppun00061  Fatty acid biosynthesis
ppun00071  Fatty acid degradation
ppun00190  Oxidative phosphorylation
ppun00220  Arginine biosynthesis
ppun00250  Alanine, aspartate and glutamate metabolism
ppun00280  Valine, leucine and isoleucine degradation
ppun00350  Tyrosine metabolism
ppun00470  D-Amino acid metabolism
ppun00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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