KEGG   PATHWAY: cnp00020
Entry
cnp00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Chryseobacterium nepalense
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
cnp00020  Citrate cycle (TCA cycle)
cnp00020

Module
cnp_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:cnp00020]
cnp_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:cnp00020]
cnp_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:cnp00020]
cnp_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:cnp00020]
cnp_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:cnp00020]
Other DBs
GO: 0006099
Organism
Chryseobacterium nepalense [GN:cnp]
Gene
M0D58_13330  citrate synthase [KO:K01647] [EC:2.3.3.1]
M0D58_09970  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
M0D58_05440  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
M0D58_17660  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
M0D58_03710  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
M0D58_03645  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
M0D58_03705  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
M0D58_03895  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
M0D58_05510  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
M0D58_15600  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
M0D58_08210  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
M0D58_08985  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
M0D58_02160  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
M0D58_08975  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
M0D58_08990  succinate dehydrogenase cytochrome b subunit [KO:K00241]
M0D58_10325  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
M0D58_10330  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
M0D58_15840  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
M0D58_07560  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
M0D58_12915  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
M0D58_03130  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
M0D58_15150  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
M0D58_03125  2-oxo acid dehydrogenase subunit E2 [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
cnp00010  Glycolysis / Gluconeogenesis
cnp00053  Ascorbate and aldarate metabolism
cnp00061  Fatty acid biosynthesis
cnp00071  Fatty acid degradation
cnp00190  Oxidative phosphorylation
cnp00220  Arginine biosynthesis
cnp00250  Alanine, aspartate and glutamate metabolism
cnp00280  Valine, leucine and isoleucine degradation
cnp00350  Tyrosine metabolism
cnp00470  D-Amino acid metabolism
cnp00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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