KEGG   PATHWAY: cnk00020
Entry
cnk00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Chryseobacterium nakagawai
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
cnk00020  Citrate cycle (TCA cycle)
cnk00020

Module
cnk_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:cnk00020]
cnk_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:cnk00020]
cnk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:cnk00020]
cnk_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:cnk00020]
cnk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:cnk00020]
Other DBs
GO: 0006099
Organism
Chryseobacterium nakagawai [GN:cnk]
Gene
EG343_16615  citrate synthase [KO:K01647] [EC:2.3.3.1]
EG343_12660  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
EG343_12655  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
EG343_04470  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
EG343_02800  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
EG343_02710  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
EG343_02795  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
EG343_23615  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EG343_05525  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EG343_03095  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EG343_05985  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EG343_08350  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
EG343_09765  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
EG343_19150  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
EG343_07960  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
EG343_11520  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
EG343_07965  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
EG343_11515  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
EG343_07955  succinate dehydrogenase [KO:K00241]
EG343_11525  succinate dehydrogenase [KO:K00241]
EG343_13040  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
EG343_13045  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
EG343_07925  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
EG343_18440  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
EG343_16010  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
EG343_20970  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
EG343_00225  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
EG343_08970  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
EG343_00230  biotin/lipoyl-binding protein [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
cnk00010  Glycolysis / Gluconeogenesis
cnk00053  Ascorbate and aldarate metabolism
cnk00061  Fatty acid biosynthesis
cnk00071  Fatty acid degradation
cnk00190  Oxidative phosphorylation
cnk00220  Arginine biosynthesis
cnk00250  Alanine, aspartate and glutamate metabolism
cnk00280  Valine, leucine and isoleucine degradation
cnk00350  Tyrosine metabolism
cnk00470  D-Amino acid metabolism
cnk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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