KEGG   PATHWAY: chrm00020
Entry
chrm00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Chromobacterium paludis
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
chrm00020  Citrate cycle (TCA cycle)
chrm00020

Module
chrm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:chrm00020]
chrm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:chrm00020]
chrm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:chrm00020]
chrm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:chrm00020]
Other DBs
GO: 0006099
Organism
Chromobacterium paludis [GN:chrm]
Gene
FYK34_00980  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
FYK34_13505  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
FYK34_06750  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
FYK34_12780  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
FYK34_00985  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
FYK34_00990  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
FYK34_01000  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
FYK34_07415  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
FYK34_16015  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
FYK34_01010  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
FYK34_01005  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
FYK34_00965  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
FYK34_00970  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
FYK34_00955  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
FYK34_00960  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
FYK34_11225  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
FYK34_11220  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
FYK34_11215  fumarate reductase subunit C [KO:K00246]
FYK34_11210  frdD; fumarate reductase subunit FrdD [KO:K00247]
FYK34_11810  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
FYK34_13510  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
FYK34_00945  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
FYK34_16025  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
FYK34_16020  aceF; dihydrolipoyllysine-residue acetyltransferase [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
chrm00010  Glycolysis / Gluconeogenesis
chrm00053  Ascorbate and aldarate metabolism
chrm00061  Fatty acid biosynthesis
chrm00071  Fatty acid degradation
chrm00190  Oxidative phosphorylation
chrm00220  Arginine biosynthesis
chrm00250  Alanine, aspartate and glutamate metabolism
chrm00280  Valine, leucine and isoleucine degradation
chrm00350  Tyrosine metabolism
chrm00470  D-Amino acid metabolism
chrm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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