KEGG   PATHWAY: skh00020
Entry
skh00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Shewanella khirikhana
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
skh00020  Citrate cycle (TCA cycle)
skh00020

Module
skh_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:skh00020]
skh_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:skh00020]
skh_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:skh00020]
skh_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:skh00020]
skh_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:skh00020]
skh_M00982  Methylcitrate cycle [PATH:skh00020]
Other DBs
GO: 0006099
Organism
Shewanella khirikhana [GN:skh]
Gene
STH12_00145  [KO:K26318]
STH12_00203  mdh_1; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
STH12_01053  gltA_1; Citrate synthase [KO:K01647] [EC:2.3.3.1]
STH12_01054  sdhC; Succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
STH12_01055  sdhD; Succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
STH12_01056  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
STH12_01057  sdhB; Succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
STH12_01058  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
STH12_01059  sucB; Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
STH12_01060  sucC; Succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
STH12_01061  sucD; Succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
STH12_01365  fumB; Fumarate hydratase class I, anaerobic [KO:K01676] [EC:4.2.1.2]
STH12_01782  icd_1; Isocitrate dehydrogenase [NADP] [KO:K00031] [EC:1.1.1.42]
STH12_02202  icd_2; Isocitrate dehydrogenase [NADP] [KO:K00030] [EC:1.1.1.41]
STH12_03139  frdB; Fumarate reductase iron-sulfur subunit [KO:K25995]
STH12_03140  frdA; Fumarate reductase flavoprotein subunit [KO:K00233]
STH12_03141  frdC_1; Fumarate reductase cytochrome b subunit [KO:K25996]
STH12_03142  frdC_2; Fumarate reductase cytochrome b subunit [KO:K25996]
STH12_03227  prpC; 2-methylcitrate synthase [KO:K01659] [EC:2.3.3.5]
STH12_03851  pckA; Phosphoenolpyruvate carboxykinase [ATP] [KO:K01610] [EC:4.1.1.49]
STH12_04073  aceE; Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
STH12_04074  aceF; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [KO:K00627] [EC:2.3.1.12]
STH12_04075  lpdA; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
STH12_04080  acnB; Aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
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
skh00010  Glycolysis / Gluconeogenesis
skh00053  Ascorbate and aldarate metabolism
skh00061  Fatty acid biosynthesis
skh00071  Fatty acid degradation
skh00190  Oxidative phosphorylation
skh00220  Arginine biosynthesis
skh00250  Alanine, aspartate and glutamate metabolism
skh00280  Valine, leucine and isoleucine degradation
skh00350  Tyrosine metabolism
skh00470  D-Amino acid metabolism
skh00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

DBGET integrated database retrieval system