KEGG   PATHWAY: slan00020
Entry
slan00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Sphingomonas lacunae
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
slan00020  Citrate cycle (TCA cycle)
slan00020

Module
slan_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:slan00020]
slan_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:slan00020]
slan_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:slan00020]
slan_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:slan00020]
slan_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:slan00020]
Other DBs
GO: 0006099
Organism
Sphingomonas lacunae [GN:slan]
Gene
GV829_10495  citrate synthase [KO:K01647] [EC:2.3.3.1]
GV829_03725  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
GV829_12590  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
GV829_01290  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
GV829_01285  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
GV829_12205  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GV829_01280  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
GV829_11870  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
GV829_11875  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
GV829_01295  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
GV829_02905  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
GV829_13900  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
GV829_01315  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
GV829_13910  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
GV829_13905  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
GV829_05455  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
GV829_03860  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
GV829_01300  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
GV829_09505  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
GV829_10415  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
GV829_10420  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
GV829_12200  pyruvate dehydrogenase complex dihydrolipoamide 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
slan00010  Glycolysis / Gluconeogenesis
slan00053  Ascorbate and aldarate metabolism
slan00061  Fatty acid biosynthesis
slan00071  Fatty acid degradation
slan00190  Oxidative phosphorylation
slan00220  Arginine biosynthesis
slan00250  Alanine, aspartate and glutamate metabolism
slan00280  Valine, leucine and isoleucine degradation
slan00350  Tyrosine metabolism
slan00470  D-Amino acid metabolism
slan00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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