KEGG   PATHWAY: vil00020
Entry
vil00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Virgibacillus phasianinus
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
vil00020  Citrate cycle (TCA cycle)
vil00020

Module
vil_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vil00020]
vil_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vil00020]
vil_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vil00020]
vil_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vil00020]
vil_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vil00020]
Other DBs
GO: 0006099
Organism
Virgibacillus phasianinus [GN:vil]
Gene
CFK37_12955  citrate synthase [KO:K01647] [EC:2.3.3.1]
CFK37_16785  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
CFK37_15360  acnA; aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
CFK37_12960  isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
CFK37_01245  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
CFK37_01240  dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
CFK37_16440  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CFK37_10925  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CFK37_14395  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
CFK37_15750  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
CFK37_15755  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
CFK37_13195  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
CFK37_13200  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
CFK37_13190  succinate dehydrogenase [KO:K00241]
CFK37_01035  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
CFK37_12965  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
CFK37_06525  mqo; malate dehydrogenase (quinone) [KO:K00116] [EC:1.1.5.4]
CFK37_16350  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
CFK37_12450  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
CFK37_16455  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
CFK37_16450  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
CFK37_16445  branched-chain alpha-keto 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
vil00010  Glycolysis / Gluconeogenesis
vil00053  Ascorbate and aldarate metabolism
vil00061  Fatty acid biosynthesis
vil00071  Fatty acid degradation
vil00190  Oxidative phosphorylation
vil00220  Arginine biosynthesis
vil00250  Alanine, aspartate and glutamate metabolism
vil00280  Valine, leucine and isoleucine degradation
vil00350  Tyrosine metabolism
vil00470  D-Amino acid metabolism
vil00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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