KEGG   PATHWAY: pmum00020
Entry
pmum00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Prunus mume (Japanese apricot)
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
pmum00020  Citrate cycle (TCA cycle)
pmum00020

Module
pmum_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pmum00020]
pmum_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pmum00020]
pmum_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pmum00020]
Other DBs
GO: 0006099
Organism
Prunus mume (Japanese apricot) [GN:pmum]
Gene
103328745  citrate synthase, glyoxysomal [KO:K01647] [EC:2.3.3.1]
103330589  citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
103321792  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
103323253  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
103323169  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
103329384  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
103340381  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
103325562  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103327377  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103329829  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103334789  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
103340345  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
103342144  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial [KO:K00030] [EC:1.1.1.41]
103332695  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
103332610  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
103326427  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
103329297  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
103323235  dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
103323127  dihydrolipoyl dehydrogenase 1, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
103338860  succinyl-CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
103334437  succinyl-CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
103340079  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
103329740  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial [KO:K00235] [EC:1.3.5.1]
103332741  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 3, mitochondrial-like isoform X1 [KO:K00235] [EC:1.3.5.1]
103332757  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 3, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
103333998  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
103324094  malate dehydrogenase [KO:K00025] [EC:1.1.1.37]
103325583  malate dehydrogenase, cytoplasmic-like isoform X2 [KO:K00025] [EC:1.1.1.37]
103326072  malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
103324868  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
103334965  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
103338505  malate dehydrogenase, chloroplastic [KO:K00026] [EC:1.1.1.37]
103335687  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
103319416  phosphoenolpyruvate carboxykinase [ATP]-like [KO:K01610] [EC:4.1.1.49]
103335532  phosphoenolpyruvate carboxykinase [ATP]-like [KO:K01610] [EC:4.1.1.49]
103335542  phosphoenolpyruvate carboxykinase [ATP]-like [KO:K01610] [EC:4.1.1.49]
103321455  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial [KO:K00161] [EC:1.2.4.1]
103332130  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic isoform X1 [KO:K00161] [EC:1.2.4.1]
103343219  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic-like [KO:K00161] [EC:1.2.4.1]
103322229  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
103325136  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic-like [KO:K00162] [EC:1.2.4.1]
103341467  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
103327668  dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial [KO:K00627] [EC:2.3.1.12]
103332293  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial [KO:K00627] [EC:2.3.1.12]
103336058  LOW QUALITY PROTEIN: dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [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
pmum00010  Glycolysis / Gluconeogenesis
pmum00053  Ascorbate and aldarate metabolism
pmum00061  Fatty acid biosynthesis
pmum00062  Fatty acid elongation
pmum00071  Fatty acid degradation
pmum00190  Oxidative phosphorylation
pmum00220  Arginine biosynthesis
pmum00250  Alanine, aspartate and glutamate metabolism
pmum00280  Valine, leucine and isoleucine degradation
pmum00350  Tyrosine metabolism
pmum00470  D-Amino acid metabolism
pmum00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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