KEGG   PATHWAY: ini00020
Entry
ini00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Ipomoea nil (Japanese morning glory)
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
ini00020  Citrate cycle (TCA cycle)
ini00020

Module
ini_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ini00020]
ini_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ini00020]
ini_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ini00020]
ini_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ini00020]
ini_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ini00020]
Other DBs
GO: 0006099
Organism
Ipomoea nil (Japanese morning glory) [GN:ini]
Gene
109181700  citrate synthase, mitochondrial [KO:K01647] [EC:2.3.3.1]
109162141  citrate synthase, glyoxysomal-like [KO:K01647] [EC:2.3.3.1]
109187198  citrate synthase, glyoxysomal-like [KO:K01647] [EC:2.3.3.1]
109165819  ATP-citrate synthase alpha chain protein 3 [KO:K01648] [EC:2.3.3.8]
109175846  ATP-citrate synthase beta chain protein 2 [KO:K01648] [EC:2.3.3.8]
109157449  ATP-citrate synthase alpha chain protein 1 [KO:K01648] [EC:2.3.3.8]
109170231  ATP-citrate synthase beta chain protein 2-like [KO:K01648] [EC:2.3.3.8]
109155837  aconitate hydratase, cytoplasmic [KO:K01681] [EC:4.2.1.3]
109187774  aconitate hydratase, cytoplasmic-like [KO:K01681] [EC:4.2.1.3]
109178146  aconitate hydratase, cytoplasmic-like [KO:K01681] [EC:4.2.1.3]
109172758  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
109177757  isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
109180460  isocitrate dehydrogenase [NADP]-like [KO:K00031] [EC:1.1.1.42]
109192700  IMDH; isocitrate dehydrogenase [NAD] catalytic subunit 5, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
109167592  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial [KO:K00030] [EC:1.1.1.41]
109161724  3-isopropylmalate dehydrogenase, chloroplastic-like [KO:K00030] [EC:1.1.1.41]
109147602  isocitrate dehydrogenase [NAD] regulatory subunit 1, mitochondrial-like [KO:K00030] [EC:1.1.1.41]
109176250  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
109148467  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
109184020  2-oxoglutarate dehydrogenase, mitochondrial-like [KO:K00164] [EC:1.2.4.2]
109188411  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 2, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
109190760  dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex 1, mitochondrial-like [KO:K00658] [EC:2.3.1.61]
109182311  dihydrolipoyl dehydrogenase 2, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
109155430  dihydrolipoyl dehydrogenase 2, chloroplastic-like [KO:K00382] [EC:1.8.1.4]
109175588  dihydrolipoyl dehydrogenase, mitochondrial [KO:K00382] [EC:1.8.1.4]
109158038  dihydrolipoyl dehydrogenase 1, mitochondrial-like [KO:K00382] [EC:1.8.1.4]
109186538  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial-like [KO:K01899] [EC:6.2.1.4 6.2.1.5]
109155107  succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial [KO:K01899] [EC:6.2.1.4 6.2.1.5]
109182788  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial-like [KO:K01900] [EC:6.2.1.4 6.2.1.5]
109161403  succinate--CoA ligase [ADP-forming] subunit beta, mitochondrial [KO:K01900] [EC:6.2.1.4 6.2.1.5]
109168538  succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial [KO:K00234] [EC:1.3.5.1]
109151275  succinate dehydrogenase [ubiquinone] flavoprotein subunit 1, mitochondrial-like [KO:K00234] [EC:1.3.5.1]
109180627  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
109180542  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 3, mitochondrial [KO:K00235] [EC:1.3.5.1]
109178349  succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial-like [KO:K00235] [EC:1.3.5.1]
109168516  succinate dehydrogenase subunit 3-1, mitochondrial-like [KO:K00236]
29082057  sdh4; succinate dehydrogenase subunit 4 [KO:K25801]
109167900  fumarate hydratase 1, mitochondrial-like [KO:K01679] [EC:4.2.1.2]
109191368  fumarate hydratase 1, mitochondrial [KO:K01679] [EC:4.2.1.2]
109186002  malate dehydrogenase, cytoplasmic-like [KO:K00025] [EC:1.1.1.37]
109176336  malate dehydrogenase-like [KO:K00025] [EC:1.1.1.37]
109176113  malate dehydrogenase [KO:K00025] [EC:1.1.1.37]
109177959  malate dehydrogenase, glyoxysomal-like [KO:K00026] [EC:1.1.1.37]
109193544  malate dehydrogenase, chloroplastic-like [KO:K00026] [EC:1.1.1.37]
109150520  malate dehydrogenase 1, mitochondrial [KO:K00026] [EC:1.1.1.37]
109149767  malate dehydrogenase, chloroplastic [KO:K00026] [EC:1.1.1.37]
109165252  malate dehydrogenase, glyoxysomal [KO:K00026] [EC:1.1.1.37]
109187664  malate dehydrogenase, mitochondrial [KO:K00026] [EC:1.1.1.37]
109149595  phosphoenolpyruvate carboxykinase [ATP]-like [KO:K01610] [EC:4.1.1.49]
109177574  phosphoenolpyruvate carboxykinase [ATP]-like [KO:K01610] [EC:4.1.1.49]
109161040  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial [KO:K00161] [EC:1.2.4.1]
109166357  pyruvate dehydrogenase E1 component subunit alpha, mitochondrial-like [KO:K00161] [EC:1.2.4.1]
109150853  pyruvate dehydrogenase E1 component subunit alpha-3, chloroplastic [KO:K00161] [EC:1.2.4.1]
109170781  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial-like [KO:K00162] [EC:1.2.4.1]
109165559  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic-like [KO:K00162] [EC:1.2.4.1]
109166528  pyruvate dehydrogenase E1 component subunit beta-3, chloroplastic-like [KO:K00162] [EC:1.2.4.1]
109157372  pyruvate dehydrogenase E1 component subunit beta-1, mitochondrial [KO:K00162] [EC:1.2.4.1]
109179445  dihydrolipoyllysine-residue acetyltransferase component 5 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
109156797  dihydrolipoyllysine-residue acetyltransferase component 4 of pyruvate dehydrogenase complex, chloroplastic [KO:K00627] [EC:2.3.1.12]
109176905  dihydrolipoyllysine-residue acetyltransferase component 1 of pyruvate dehydrogenase complex, mitochondrial [KO:K00627] [EC:2.3.1.12]
109192453  dihydrolipoyllysine-residue acetyltransferase component 2 of pyruvate dehydrogenase complex, mitochondrial-like [KO:K00627] [EC:2.3.1.12]
109187506  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
ini00010  Glycolysis / Gluconeogenesis
ini00053  Ascorbate and aldarate metabolism
ini00061  Fatty acid biosynthesis
ini00062  Fatty acid elongation
ini00071  Fatty acid degradation
ini00190  Oxidative phosphorylation
ini00220  Arginine biosynthesis
ini00250  Alanine, aspartate and glutamate metabolism
ini00280  Valine, leucine and isoleucine degradation
ini00350  Tyrosine metabolism
ini00470  D-Amino acid metabolism
ini00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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