ENTRY       gmx00020                    Pathway
NAME        Citrate cycle (TCA cycle) - Glycine max (soybean)
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 gmx00020  Citrate cycle (TCA cycle)
MODULE      gmx_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:gmx00020]
            gmx_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:gmx00020]
            gmx_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:gmx00020]
            gmx_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:gmx00020]
            gmx_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:gmx00020]
DBLINKS     GO: 0006099
ORGANISM    Glycine max (soybean) [GN:gmx]
GENE        100784332  citrate synthase, glyoxysomal isoform X1 [KO:K01647] [EC:2.3.3.1]
            100499624  citrate synthase [KO:K01647] [EC:2.3.3.1]
            100781418  citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
            100775180  citrate synthase, glyoxysomal [KO:K01647] [EC:2.3.3.1]
            100170739  peroxisomal citrate synthase [KO:K01647] [EC:2.3.3.1]
            100805556  citrate synthase, glyoxysomal [KO:K01647] [EC:2.3.3.1]
            100818180  ATP-citrate synthase alpha chain protein 1-like [KO:K01648] [EC:2.3.3.8]
            100801407  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
            100787121  ATP-citrate synthase alpha chain protein 1 [KO:K01648] [EC:2.3.3.8]
            100800904  ATP-citrate synthase beta chain protein 1 [KO:K01648] [EC:2.3.3.8]
            100787551  ATP-citrate synthase alpha chain protein 2 isoform X2 [KO:K01648] [EC:2.3.3.8]
            100812287  ATP-citrate synthase alpha chain protein 1-like [KO:K01648] [EC:2.3.3.8]
            100817228  ATP-citrate synthase alpha chain protein 1 [KO:K01648] [EC:2.3.3.8]
            100796266  ATP-citrate synthase beta chain protein 1 isoform X1 [KO:K01648] [EC:2.3.3.8]
            100795745  ATP-citrate synthase beta chain protein 1 [KO:K01648] [EC:2.3.3.8]
            100780205  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
            100499625  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
            100793264  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
            100811955  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
            100778506  aconitate hydratase, cytoplasmic isoform X1 [KO:K01681] [EC:4.2.1.3]
            100794803  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
            100810088  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
            606295  IDH1; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
            100791166  IDH; isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
            100819151  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
            100786103  isocitrate dehydrogenase [NADP], chloroplastic [KO:K00031] [EC:1.1.1.42]
            100816688  isocitrate dehydrogenase [NADP], chloroplastic [KO:K00031] [EC:1.1.1.42]
            100800050  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
            100778831  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
            100781465  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial isoform X2 [KO:K00030] [EC:1.1.1.41]
            100777867  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
            100790110  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
            100811326  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial [KO:K00030] [EC:1.1.1.41]
            100786978  2-oxoglutarate dehydrogenase, mitochondrial [KO:K00164] [EC:1.2.4.2]
            100781680  2-oxoglutarate dehydrogenase, mitochondrial [KO:K00164] [EC:1.2.4.2]
            100816277  2-oxoglutarate dehydrogenase, mitochondrial [KO:K00164] [EC:1.2.4.2]
            100799149  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial [KO:K00658] [EC:2.3.1.61]
            100813488  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial isoform X2 [KO:K00658] [EC:2.3.1.61]
            547523  ferric leghemoglobin reductase-2 precursor [KO:K00382] [EC:1.8.1.4]
            100782004  dihydrolipoyl dehydrogenase 2, chloroplastic [KO:K00382] [EC:1.8.1.4]
            100803176  dihydrolipoyl dehydrogenase 2, chloroplastic [KO:K00382] [EC:1.8.1.4]
            100788043  leghemoglobin reductase-like [KO:K00382] [EC:1.8.1.4]
            100809578  dihydrolipoyl dehydrogenase 2, chloroplastic [KO:K00382] [EC:1.8.1.4]
            100776304  dihydrolipoyl dehydrogenase 2, chloroplastic [KO:K00382] [EC:1.8.1.4]
            100782001  uncharacterized protein LOC100782001 [KO:K01899] [EC:6.2.1.4 6.2.1.5]
            100815484  succinate--CoA ligase [ADP-forming] subunit alpha, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
            100527938  succinyl-CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
            100790952  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
            100802169  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
            100818379  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
            100803020  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial [KO:K00234] [EC:1.3.5.1]
            100815377  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial [KO:K00235] [EC:1.3.5.1]
            102661752  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial [KO:K00235] [EC:1.3.5.1]
            100527396  succinate dehydrogenase subunit 3-like protein [KO:K00236]
            100499683  succinate dehydrogenase subunit 3-1, mitochondrial [KO:K00236]
            100500565  SQR/QFR domain-containing protein [KO:K25801]
            100779728  succinate dehydrogenase subunit 4, mitochondrial [KO:K25801]
            100813552  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
            100819617  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
            100810850  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
            100783188  malate dehydrogenase, cytoplasmic [KO:K00025] [EC:1.1.1.37]
            100811402  malate dehydrogenase, cytoplasmic-like [KO:K00025] [EC:1.1.1.37]
            547963  cytosolic malate dehydrogenase [KO:K00025] [EC:1.1.1.37]
            100777296  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
            100799793  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
            100170735  peroxisomal malate dehydrogenase [KO:K00026] [EC:1.1.1.37]
            606509  MDH-1; malate dehydrogenase [KO:K00026] [EC:1.1.1.37]
            732641  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
            100783173  malate dehydrogenase, chloroplastic [KO:K00026] [EC:1.1.1.37]
            100814078  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
            100814425  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
            106797956  malate dehydrogenase 1, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
            100777507  phosphoenolpyruvate carboxykinase (ATP) 1 isoform X1 [KO:K01610] [EC:4.1.1.49]
            100791015  phosphoenolpyruvate carboxykinase (ATP) 1 [KO:K01610] [EC:4.1.1.49]
            100781710  phosphoenolpyruvate carboxykinase (ATP) 1 [KO:K01610] [EC:4.1.1.49]
            100777147  phosphoenolpyruvate carboxykinase (ATP) 1 [KO:K01610] [EC:4.1.1.49]
            100789390  phosphoenolpyruvate carboxykinase (ATP) 2 isoform X1 [KO:K01610] [EC:4.1.1.49]
            100786257  phosphoenolpyruvate carboxykinase (ATP) 1 [KO:K01610] [EC:4.1.1.49]
            106794362  phosphoenolpyruvate carboxykinase (ATP) 2 [KO:K01610] [EC:4.1.1.49]
            100816737  pyruvate dehydrogenase E1 component subunit alpha-1, mitochondrial [KO:K00161] [EC:1.2.4.1]
            100781250  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial [KO:K00161] [EC:1.2.4.1]
            100778279  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
            100813933  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial [KO:K00161] [EC:1.2.4.1]
            100802573  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
            100793091  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
            100811207  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
            113000432  pyruvate dehydrogenase E1 component subunit alpha-2, mitochondrial [KO:K00161] [EC:1.2.4.1]
            100805001  uncharacterized protein LOC100805001 [KO:K00162] [EC:1.2.4.1]
            100817577  pyruvate dehydrogenase E1 component subunit beta-1-like [KO:K00162] [EC:1.2.4.1]
            100780826  uncharacterized protein LOC100780826 [KO:K00162] [EC:1.2.4.1]
            100811513  pyruvate dehydrogenase E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
            100798407  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic [KO:K00162] [EC:1.2.4.1]
            100787512  uncharacterized protein LOC100787512 [KO:K00162] [EC:1.2.4.1]
            100777306  pyruvate dehydrogenase E1 component subunit beta, mitochondrial isoform X1 [KO:K00162] [EC:1.2.4.1]
            100810836  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
            100804938  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial isoform X2 [KO:K00627] [EC:2.3.1.12]
            100786455  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
            100813087  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic isoform X2 [KO:K00627] [EC:2.3.1.12]
            100799926  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
            100800280  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial [KO:K00627] [EC:2.3.1.12]
            100780758  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial isoform X2 [KO:K00627] [EC:2.3.1.12]
            100778218  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial isoform X1 [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)
REL_PATHWAY gmx00010  Glycolysis / Gluconeogenesis
            gmx00053  Ascorbate and aldarate metabolism
            gmx00061  Fatty acid biosynthesis
            gmx00062  Fatty acid elongation
            gmx00071  Fatty acid degradation
            gmx00190  Oxidative phosphorylation
            gmx00220  Arginine biosynthesis
            gmx00250  Alanine, aspartate and glutamate metabolism
            gmx00280  Valine, leucine and isoleucine degradation
            gmx00350  Tyrosine metabolism
            gmx00470  D-Amino acid metabolism
            gmx00630  Glyoxylate and dicarboxylate metabolism
KO_PATHWAY  ko00020
///
