KEGG   PATHWAY: brp00020
Entry
brp00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Brassica rapa (field mustard)
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
brp00020  Citrate cycle (TCA cycle)
brp00020

Module
brp_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:brp00020]
brp_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:brp00020]
brp_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:brp00020]
brp_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:brp00020]
brp_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:brp00020]
Other DBs
GO: 0006099
Organism
Brassica rapa (field mustard) [GN:brp]
Gene
103866666  citrate synthase 3, peroxisomal [KO:K01647] [EC:2.3.3.1]
103830182  citrate synthase 2, peroxisomal [KO:K01647] [EC:2.3.3.1]
103841749  citrate synthase 2, peroxisomal-like [KO:K01647] [EC:2.3.3.1]
103841750  citrate synthase 2, peroxisomal [KO:K01647] [EC:2.3.3.1]
103866133  citrate synthase 4, mitochondrial [KO:K01647] [EC:2.3.3.1]
103862961  citrate synthase 2, peroxisomal [KO:K01647] [EC:2.3.3.1]
103858130  citrate synthase 4, mitochondrial isoform X2 [KO:K01647] [EC:2.3.3.1]
103862913  citrate synthase 5, mitochondrial [KO:K01647] [EC:2.3.3.1]
103868078  ATP-citrate synthase alpha chain protein 1 [KO:K01648] [EC:2.3.3.8]
103836337  ATP-citrate synthase alpha chain protein 3 [KO:K01648] [EC:2.3.3.8]
103854601  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
103837286  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
103838482  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
103873312  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
103834926  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
103834825  aconitate hydratase 2, mitochondrial [KO:K01681] [EC:4.2.1.3]
103871912  aconitate hydratase 3, mitochondrial [KO:K01681] [EC:4.2.1.3]
103860340  aconitate hydratase 3, mitochondrial [KO:K01681] [EC:4.2.1.3]
103849095  cytosolic isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103831074  cytosolic isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103830157  peroxisomal isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103852304  cytosolic isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
103856088  isocitrate dehydrogenase [NADP], chloroplastic/mitochondrial [KO:K00031] [EC:1.1.1.42]
103870516  isocitrate dehydrogenase [NAD] catalytic subunit 6, mitochondrial isoform X2 [KO:K00030] [EC:1.1.1.41]
103847393  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial [KO:K00030] [EC:1.1.1.41]
103829929  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
103845992  isocitrate dehydrogenase [NAD] regulatory subunit 2, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
103834292  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
103834945  isocitrate dehydrogenase [NAD] regulatory subunit 3, mitochondrial isoform X2 [KO:K00030] [EC:1.1.1.41]
103850485  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial [KO:K00030] [EC:1.1.1.41]
103855482  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial [KO:K00030] [EC:1.1.1.41]
103874014  2-oxoglutarate dehydrogenase, mitochondrial [KO:K00164] [EC:1.2.4.2]
103839144  2-oxoglutarate dehydrogenase, mitochondrial [KO:K00164] [EC:1.2.4.2]
103830012  2-oxoglutarate dehydrogenase, mitochondrial [KO:K00164] [EC:1.2.4.2]
103844953  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial isoform X2 [KO:K00658] [EC:2.3.1.61]
103836205  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial [KO:K00658] [EC:2.3.1.61]
103857007  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial [KO:K00658] [EC:2.3.1.61]
103851907  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial isoform X1 [KO:K00658] [EC:2.3.1.61]
103869701  dihydrolipoyl dehydrogenase 2, mitochondrial [KO:K00382] [EC:1.8.1.4]
103870046  dihydrolipoyl dehydrogenase 2, chloroplastic [KO:K00382] [EC:1.8.1.4]
103871503  dihydrolipoyl dehydrogenase 1, mitochondrial [KO:K00382] [EC:1.8.1.4]
103859689  dihydrolipoyl dehydrogenase 1, chloroplastic isoform X1 [KO:K00382] [EC:1.8.1.4]
103860832  LOW QUALITY PROTEIN: dihydrolipoyl dehydrogenase 2, chloroplastic [KO:K00382] [EC:1.8.1.4]
103847149  succinate--CoA ligase [ADP-forming] subunit alpha-1, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
103860515  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
103850689  succinate--CoA ligase [ADP-forming] subunit alpha-1, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
103855774  succinate--CoA ligase [ADP-forming] subunit alpha-1, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
103828176  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
103838252  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
103829568  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial isoform X2 [KO:K00234] [EC:1.3.5.1]
103837712  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial isoform X1 [KO:K00234] [EC:1.3.5.1]
103874166  succinate dehydrogenase [ubiquinone] flavoprotein subunit 2, mitochondrial [KO:K00234] [EC:1.3.5.1]
103855282  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 3, mitochondrial [KO:K00235] [EC:1.3.5.1]
103875224  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 1, mitochondrial [KO:K00235] [EC:1.3.5.1]
103850190  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial [KO:K00235] [EC:1.3.5.1]
103836989  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 1, mitochondrial [KO:K00235] [EC:1.3.5.1]
103854239  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 1, mitochondrial [KO:K00235] [EC:1.3.5.1]
103847217  succinate dehydrogenase subunit 3-1, mitochondrial isoform X1 [KO:K00236]
103858221  succinate dehydrogenase subunit 4, mitochondrial [KO:K25801]
103866371  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
103844258  malate dehydrogenase 1, cytoplasmic [KO:K00025] [EC:1.1.1.37]
103836575  malate dehydrogenase 2, cytoplasmic [KO:K00025] [EC:1.1.1.37]
103839246  malate dehydrogenase 1, cytoplasmic [KO:K00025] [EC:1.1.1.37]
103845103  malate dehydrogenase 3, cytoplasmic [KO:K00025] [EC:1.1.1.37]
103847223  malate dehydrogenase 2, glyoxysomal [KO:K00026] [EC:1.1.1.37]
103872206  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
103873232  malate dehydrogenase, chloroplastic [KO:K00026] [EC:1.1.1.37]
103871139  malate dehydrogenase 1, mitochondrial [KO:K00026] [EC:1.1.1.37]
103832683  malate dehydrogenase 1, mitochondrial [KO:K00026] [EC:1.1.1.37]
103850366  malate dehydrogenase 2, glyoxysomal [KO:K00026] [EC:1.1.1.37]
103864390  malate dehydrogenase 1, peroxisomal [KO:K00026] [EC:1.1.1.37]
103868444  malate dehydrogenase 1, mitochondrial isoform X1 [KO:K00026] [EC:1.1.1.37]
103856993  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
103874006  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
103855313  phosphoenolpyruvate carboxykinase (ATP)-like isoform X2 [KO:K01610] [EC:4.1.1.49]
103862585  phosphoenolpyruvate carboxykinase (ATP)-like [KO:K01610] [EC:4.1.1.49]
103844622  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
103829344  pyruvate dehydrogenase E1 component subunit alpha-1, mitochondrial [KO:K00161] [EC:1.2.4.1]
103829227  pyruvate dehydrogenase E1 component subunit alpha-2, mitochondrial [KO:K00161] [EC:1.2.4.1]
103843771  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
103840701  pyruvate dehydrogenase E1 component subunit alpha-2, mitochondrial [KO:K00161] [EC:1.2.4.1]
103831554  pyruvate dehydrogenase E1 component subunit alpha-2, mitochondrial [KO:K00161] [EC:1.2.4.1]
103835237  pyruvate dehydrogenase E1 component subunit beta-2, chloroplastic isoform X1 [KO:K00162] [EC:1.2.4.1]
103840432  pyruvate dehydrogenase E1 component subunit beta-2, chloroplastic [KO:K00162] [EC:1.2.4.1]
103852176  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
103857264  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
103864874  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
103839353  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
103840005  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
103871061  dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial isoform X1 [KO:K00627] [EC:2.3.1.12]
103870081  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial [KO:K00627] [EC:2.3.1.12]
103875341  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
103863477  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial isoform X1 [KO:K00627] [EC:2.3.1.12]
103859549  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial [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
brp00010  Glycolysis / Gluconeogenesis
brp00053  Ascorbate and aldarate metabolism
brp00061  Fatty acid biosynthesis
brp00062  Fatty acid elongation
brp00071  Fatty acid degradation
brp00190  Oxidative phosphorylation
brp00220  Arginine biosynthesis
brp00250  Alanine, aspartate and glutamate metabolism
brp00280  Valine, leucine and isoleucine degradation
brp00350  Tyrosine metabolism
brp00470  D-Amino acid metabolism
brp00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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