KEGG   PATHWAY: cabk00020
Entry
cabk00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Caballeronia sp. NK8
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
cabk00020  Citrate cycle (TCA cycle)
cabk00020

Module
cabk_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:cabk00020]
cabk_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:cabk00020]
cabk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:cabk00020]
cabk_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:cabk00020]
cabk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:cabk00020]
Other DBs
GO: 0006099
Organism
Caballeronia sp. NK8 [GN:cabk]
Gene
NK8_30480  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
NK8_32360  helix-turn-helix domain-containing protein [KO:K01647] [EC:2.3.3.1]
NK8_68320  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
NK8_83790  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
NK8_30360  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
NK8_49160  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
NK8_06040  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
NK8_42060  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
NK8_16820  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
NK8_65460  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
NK8_16810  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
NK8_09860  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NK8_16800  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NK8_34770  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NK8_41130  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NK8_64840  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NK8_05180  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
NK8_31410  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
NK8_05170  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
NK8_31420  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
NK8_33530  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
NK8_30450  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
NK8_77380  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
NK8_30460  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
NK8_77390  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
NK8_30430  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
NK8_77360  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
NK8_30440  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
NK8_77370  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
NK8_46480  FAD-binding protein [KO:K00244] [EC:1.3.5.1]
NK8_46530  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
NK8_46520  succinate dehydrogenase [KO:K00246]
NK8_46510  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00247]
NK8_10120  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
NK8_20360  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
NK8_30410  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
NK8_00160  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
NK8_09840  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
NK8_38390  mdeB; alpha-ketoglutarate dehydrogenase [KO:K00163] [EC:1.2.4.1]
NK8_09850  aceF; dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
NK8_51110  acetoin dehydrogenase dihydrolipoyllysine-residue acetyltransferase subunit [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
cabk00010  Glycolysis / Gluconeogenesis
cabk00053  Ascorbate and aldarate metabolism
cabk00061  Fatty acid biosynthesis
cabk00071  Fatty acid degradation
cabk00190  Oxidative phosphorylation
cabk00220  Arginine biosynthesis
cabk00250  Alanine, aspartate and glutamate metabolism
cabk00280  Valine, leucine and isoleucine degradation
cabk00350  Tyrosine metabolism
cabk00470  D-Amino acid metabolism
cabk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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