KEGG   PATHWAY: pjp00020
Entry
pjp00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pseudoxanthomonas japonensis
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
pjp00020  Citrate cycle (TCA cycle)
pjp00020

Module
pjp_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pjp00020]
pjp_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pjp00020]
pjp_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pjp00020]
pjp_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pjp00020]
pjp_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pjp00020]
Other DBs
GO: 0006099
Organism
Pseudoxanthomonas japonensis [GN:pjp]
Gene
LAG73_01800  citrate synthase [KO:K01647] [EC:2.3.3.1]
LAG73_12430  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
LAG73_06855  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
LAG73_06900  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
LAG73_17285  icd; isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
LAG73_10625  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
LAG73_06195  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
LAG73_06190  sucB; dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
LAG73_06185  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LAG73_19630  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LAG73_13600  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
LAG73_13605  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
LAG73_00825  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
LAG73_05600  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LAG73_05605  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LAG73_05590  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
LAG73_05595  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
LAG73_05470  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
LAG73_06225  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
LAG73_12445  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
LAG73_02455  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
LAG73_19255  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
LAG73_19625  dihydrolipoyllysine-residue 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
pjp00010  Glycolysis / Gluconeogenesis
pjp00053  Ascorbate and aldarate metabolism
pjp00061  Fatty acid biosynthesis
pjp00071  Fatty acid degradation
pjp00190  Oxidative phosphorylation
pjp00220  Arginine biosynthesis
pjp00250  Alanine, aspartate and glutamate metabolism
pjp00280  Valine, leucine and isoleucine degradation
pjp00350  Tyrosine metabolism
pjp00470  D-Amino acid metabolism
pjp00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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