KEGG   PATHWAY: saly00020
Entry
saly00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Salinivibrio sp. YCSC6
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
saly00020  Citrate cycle (TCA cycle)
saly00020

Module
saly_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:saly00020]
saly_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:saly00020]
saly_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:saly00020]
saly_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:saly00020]
saly_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:saly00020]
Other DBs
GO: 0006099
Organism
Salinivibrio sp. YCSC6 [GN:saly]
Gene
E8E00_08760  citrate synthase [KO:K01647] [EC:2.3.3.1]
E8E00_16285  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
E8E00_11320  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
E8E00_03860  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
E8E00_08735  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
E8E00_08730  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
E8E00_11340  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
E8E00_12445  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
E8E00_08720  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
E8E00_08725  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
E8E00_08745  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
E8E00_08740  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
E8E00_08755  sdhC; succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
E8E00_08750  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
E8E00_00950  frdA; fumarate reductase (quinol) flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
E8E00_00945  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
E8E00_00940  frdC; fumarate reductase subunit FrdC [KO:K00246]
E8E00_00935  frdD; fumarate reductase subunit FrdD [KO:K00247]
E8E00_06010  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
E8E00_16325  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
E8E00_14850  transcriptional regulator [KO:K01774] [EC:4.2.1.2]
E8E00_01350  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
E8E00_00420  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
E8E00_11350  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
E8E00_11345  aceF; pyruvate dehydrogenase complex 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
saly00010  Glycolysis / Gluconeogenesis
saly00053  Ascorbate and aldarate metabolism
saly00061  Fatty acid biosynthesis
saly00071  Fatty acid degradation
saly00190  Oxidative phosphorylation
saly00220  Arginine biosynthesis
saly00250  Alanine, aspartate and glutamate metabolism
saly00280  Valine, leucine and isoleucine degradation
saly00350  Tyrosine metabolism
saly00470  D-Amino acid metabolism
saly00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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