KEGG   PATHWAY: msyl00020
Entry
msyl00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Malus sylvestris (European crab apple)
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
msyl00020  Citrate cycle (TCA cycle)
msyl00020

Module
msyl_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:msyl00020]
msyl_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:msyl00020]
msyl_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:msyl00020]
msyl_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:msyl00020]
msyl_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:msyl00020]
Other DBs
GO: 0006099
Organism
Malus sylvestris (European crab apple) [GN:msyl]
Gene
126583226  citrate synthase, glyoxysomal [KO:K01647] [EC:2.3.3.1]
126598326  citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
126612052  citrate synthase, glyoxysomal-like [KO:K01647] [EC:2.3.3.1]
126628082  citrate synthase, mitochondrial-like isoform X1 [KO:K01647] [EC:2.3.3.1]
126595116  ATP-citrate synthase alpha chain protein 2-like isoform X1 [KO:K01648] [EC:2.3.3.8]
126607309  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
126595840  ATP-citrate synthase beta chain protein 1-like [KO:K01648] [EC:2.3.3.8]
126607961  ATP-citrate synthase alpha chain protein 1 [KO:K01648] [EC:2.3.3.8]
126596746  ATP-citrate synthase alpha chain protein 1-like [KO:K01648] [EC:2.3.3.8]
126608628  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
126583323  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
126612274  aconitate hydratase, cytoplasmic-like [KO:K01681] [EC:4.2.1.3]
126589657  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
126617103  aconitate hydratase, cytoplasmic-like [KO:K01681] [EC:4.2.1.3]
126604449  aconitate hydratase 1-like [KO:K01681] [EC:4.2.1.3]
126583511  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
126610542  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
126612506  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
126634282  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
126622218  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
126611911  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
126587426  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
126602332  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
126617792  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
126620953  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
126593784  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
126599223  uncharacterized protein LOC126599223 [KO:K00164] [EC:1.2.4.2]
126629368  uncharacterized protein LOC126629368 [KO:K00164] [EC:1.2.4.2]
126633876  uncharacterized protein LOC126633876 [KO:K00164] [EC:1.2.4.2]
126583351  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
126612294  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial-like isoform X1 [KO:K00658] [EC:2.3.1.61]
126615869  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial [KO:K00658] [EC:2.3.1.61]
126595115  dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
126607044  dihydrolipoyl dehydrogenase, mitochondrial-like [KO:K00382] [EC:1.8.1.4]
126596626  dihydrolipoyl dehydrogenase 2, chloroplastic-like isoform X1 [KO:K00382] [EC:1.8.1.4]
126608458  dihydrolipoyl dehydrogenase 2, chloroplastic-like isoform X1 [KO:K00382] [EC:1.8.1.4]
126599738  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial-like [KO:K01899] [EC:6.2.1.4 6.2.1.5]
126625309  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
126585844  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
126622056  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial-like [KO:K01900] [EC:6.2.1.4 6.2.1.5]
126600230  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
126604822  succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
126582347  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
126611496  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
126588622  succinate dehydrogenase subunit 3-1, mitochondrial-like [KO:K00236]
73938926  sdh4; succinate dehydrogenase subunit 4 [KO:K25801]
126590731  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
126584716  malate dehydrogenase-like isoform X1 [KO:K00025] [EC:1.1.1.37]
126621245  malate dehydrogenase-like isoform X1 [KO:K00025] [EC:1.1.1.37]
126596270  malate dehydrogenase [KO:K00025] [EC:1.1.1.37]
126607591  malate dehydrogenase-like [KO:K00025] [EC:1.1.1.37]
126625844  malate dehydrogenase, chloroplastic [KO:K00026] [EC:1.1.1.37]
126598921  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
126613768  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
126614364  malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
126589905  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
126603811  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
126623254  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
126626240  phosphoenolpyruvate carboxykinase (ATP) 1-like [KO:K01610] [EC:4.1.1.49]
126631817  phosphoenolpyruvate carboxykinase (ATP) 1-like [KO:K01610] [EC:4.1.1.49]
126629813  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
126622755  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic-like [KO:K00161] [EC:1.2.4.1]
126596138  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial [KO:K00161] [EC:1.2.4.1]
126607883  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial-like [KO:K00161] [EC:1.2.4.1]
126623214  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic-like [KO:K00162] [EC:1.2.4.1]
126596848  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
126608328  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial-like [KO:K00162] [EC:1.2.4.1]
126611304  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
126629129  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
126588050  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
126619212  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial-like isoform X1 [KO:K00627] [EC:2.3.1.12]
126622404  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
126595515  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
126608248  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
126581905  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial-like [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
msyl00010  Glycolysis / Gluconeogenesis
msyl00053  Ascorbate and aldarate metabolism
msyl00061  Fatty acid biosynthesis
msyl00062  Fatty acid elongation
msyl00071  Fatty acid degradation
msyl00190  Oxidative phosphorylation
msyl00220  Arginine biosynthesis
msyl00250  Alanine, aspartate and glutamate metabolism
msyl00280  Valine, leucine and isoleucine degradation
msyl00350  Tyrosine metabolism
msyl00470  D-Amino acid metabolism
msyl00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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