KEGG   PATHWAY: ogl00020
Entry
ogl00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Oryza glaberrima (African rice)
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
ogl00020  Citrate cycle (TCA cycle)
ogl00020

Module
ogl_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ogl00020]
ogl_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ogl00020]
ogl_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ogl00020]
ogl_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ogl00020]
ogl_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ogl00020]
Other DBs
GO: 0006099
Organism
Oryza glaberrima (African rice) [GN:ogl]
Gene
127762327  citrate synthase 4, mitochondrial-like [KO:K01647] [EC:2.3.3.1]
127763277  citrate synthase 3, peroxisomal-like [KO:K01647] [EC:2.3.3.1]
127782060  ATP-citrate synthase beta chain protein 1 [KO:K01648] [EC:2.3.3.8]
127755401  ATP-citrate synthase alpha chain protein 2 [KO:K01648] [EC:2.3.3.8]
127757906  ATP-citrate synthase alpha chain protein 3 [KO:K01648] [EC:2.3.3.8]
127766855  aconitate hydratase, cytoplasmic-like [KO:K01681] [EC:4.2.1.3]
127782816  putative aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
127772420  cytosolic isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
127773470  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
127768497  cytosolic isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
127770413  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
127760933  isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
127764422  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial isoform X1 [KO:K00030] [EC:1.1.1.41]
127770464  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like isoform X1 [KO:K00030] [EC:1.1.1.41]
127779067  uncharacterized protein LOC127779067 [KO:K00164] [EC:1.2.4.2]
127770090  uncharacterized protein LOC127770090 [KO:K00164] [EC:1.2.4.2]
127763996  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
127770418  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial-like isoform X1 [KO:K00658] [EC:2.3.1.61]
127786159  dihydrolipoyl dehydrogenase 1, mitochondrial-like [KO:K00382] [EC:1.8.1.4]
127774656  dihydrolipoyl dehydrogenase, mitochondrial-like [KO:K00382] [EC:1.8.1.4]
127775052  dihydrolipoyl dehydrogenase 2, chloroplastic-like isoform X1 [KO:K00382] [EC:1.8.1.4]
127755663  dihydrolipoyl dehydrogenase 1, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
127779959  succinate--CoA ligase [ADP-forming] subunit alpha, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
127762218  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
127779182  succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
127785364  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial [KO:K00235] [EC:1.3.5.1]
127781942  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 1, mitochondrial isoform X1 [KO:K00235] [EC:1.3.5.1]
127762792  succinate dehydrogenase subunit 3-1, mitochondrial [KO:K00236]
127779155  succinate dehydrogenase subunit 3-2, mitochondrial [KO:K00236]
127772286  succinate dehydrogenase subunit 4, mitochondrial [KO:K25801]
127772646  succinate dehydrogenase subunit 4, mitochondrial-like [KO:K25801]
127766648  fumarate hydratase 1, mitochondrial-like [KO:K01679] [EC:4.2.1.2]
127771081  malate dehydrogenase, cytoplasmic-like [KO:K00025] [EC:1.1.1.37]
127752469  malate dehydrogenase, cytoplasmic [KO:K00025] [EC:1.1.1.37]
127775022  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
127777499  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
127767248  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
127780936  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
127782772  malate dehydrogenase, chloroplastic [KO:K00026] [EC:1.1.1.37]
127757775  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
127752694  malate dehydrogenase, mitochondrial-like [KO:K00026] [EC:1.1.1.37]
127786113  phosphoenolpyruvate carboxykinase (ATP) 1-like [KO:K01610] [EC:4.1.1.49]
127765825  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
127771506  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
127762462  pyruvate dehydrogenase E1 component subunit alpha-1, mitochondrial [KO:K00161] [EC:1.2.4.1]
127775512  pyruvate dehydrogenase E1 component subunit alpha-2, mitochondrial [KO:K00161] [EC:1.2.4.1]
127784776  pyruvate dehydrogenase E1 component subunit beta-2, mitochondrial [KO:K00162] [EC:1.2.4.1]
127769059  pyruvate dehydrogenase E1 component subunit beta-4, chloroplastic [KO:K00162] [EC:1.2.4.1]
127782970  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
127757560  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic [KO:K00162] [EC:1.2.4.1]
127783772  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic-like [KO:K00627] [EC:2.3.1.12]
127776032  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial [KO:K00627] [EC:2.3.1.12]
127763939  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
127778014  dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
127779702  dihydrolipoyllysine-residue acetyltransferase component 3 of pyruvate dehydrogenase complex, mitochondrial-like isoform X1 [KO:K00627] [EC:2.3.1.12]
127783307  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
127757378  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic-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
ogl00010  Glycolysis / Gluconeogenesis
ogl00053  Ascorbate and aldarate metabolism
ogl00061  Fatty acid biosynthesis
ogl00062  Fatty acid elongation
ogl00071  Fatty acid degradation
ogl00190  Oxidative phosphorylation
ogl00220  Arginine biosynthesis
ogl00250  Alanine, aspartate and glutamate metabolism
ogl00280  Valine, leucine and isoleucine degradation
ogl00350  Tyrosine metabolism
ogl00470  D-Amino acid metabolism
ogl00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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