KEGG   PATHWAY: vsy00020
Entry
vsy00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Vibrio syngnathi
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
vsy00020  Citrate cycle (TCA cycle)
vsy00020

Module
vsy_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vsy00020]
vsy_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vsy00020]
vsy_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vsy00020]
vsy_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vsy00020]
vsy_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vsy00020]
Other DBs
GO: 0006099
Organism
Vibrio syngnathi [GN:vsy]
Gene
K08M4_21290  gltA; Citrate synthase [KO:K01647] [EC:2.3.3.1]
K08M4_05780  acnB; Aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
K08M4_10700  icd2; Isocitrate dehydrogenase 2 [KO:K00031] [EC:1.1.1.42]
K08M4_21240  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
K08M4_21230  sucB; Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
K08M4_02390  mercury(II) reductase [KO:K00382] [EC:1.8.1.4]
K08M4_05610  mercury(II) reductase [KO:K00382] [EC:1.8.1.4]
K08M4_21210  sucD; Succinyl-CoA ligase [ADP-forming] subunit alpha [KO:K01902] [EC:6.2.1.5]
K08M4_21220  sucC; Succinyl-CoA ligase [ADP-forming] subunit beta [KO:K01903] [EC:6.2.1.5]
K08M4_21260  sdhA; Succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
K08M4_21250  sdhB; Succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
K08M4_21280  sdhC; Succinate dehydrogenase cytochrome b556 subunit [KO:K00241]
K08M4_21270  sdhD; Succinate dehydrogenase hydrophobic membrane anchor subunit [KO:K00242]
K08M4_27310  frdA; Fumarate reductase flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
K08M4_27320  frdB; Fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
K08M4_27330  frdC; Fumarate reductase subunit C [KO:K00246]
K08M4_27340  frdD; Fumarate reductase subunit D [KO:K00247]
K08M4_16950  fumB; Fumarate hydratase class I, anaerobic [KO:K01676] [EC:4.2.1.2]
K08M4_01870  fumC; Fumarate hydratase class II [KO:K01679] [EC:4.2.1.2]
K08M4_26070  mdh; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
K08M4_28480  pckA; Phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
K08M4_05590  aceE; Pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
K08M4_05600  aceF; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [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
vsy00010  Glycolysis / Gluconeogenesis
vsy00053  Ascorbate and aldarate metabolism
vsy00061  Fatty acid biosynthesis
vsy00071  Fatty acid degradation
vsy00190  Oxidative phosphorylation
vsy00220  Arginine biosynthesis
vsy00250  Alanine, aspartate and glutamate metabolism
vsy00280  Valine, leucine and isoleucine degradation
vsy00350  Tyrosine metabolism
vsy00470  D-Amino acid metabolism
vsy00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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