KEGG   PATHWAY: vfm00020
Entry
vfm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Aliivibrio fischeri MJ11
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
vfm00020  Citrate cycle (TCA cycle)
vfm00020

Module
vfm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:vfm00020]
vfm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:vfm00020]
vfm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:vfm00020]
vfm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:vfm00020]
vfm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:vfm00020]
Other DBs
GO: 0006099
Organism
Aliivibrio fischeri MJ11 [GN:vfm]
Gene
VFMJ11_0856  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
VFMJ11_2266  acnB; aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
VFMJ11_1902  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
VFMJ11_0861  sucA; oxoglutarate dehydrogenase (succinyl-transferring), E1 component [KO:K00164] [EC:1.2.4.2]
VFMJ11_0862  sucB; dihydrolipoyllysine-residue succinyltransferase, E2 component of oxoglutarate dehydrogenase (succinyl-transferring) complex [KO:K00658] [EC:2.3.1.61]
VFMJ11_2413  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
VFMJ11_2292  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
VFMJ11_0864  succinyl-CoA ligase (ADP-forming) subunit alpha [KO:K01902] [EC:6.2.1.5]
VFMJ11_0863  succinyl-CoA synthetase beta chain [KO:K01903] [EC:6.2.1.5]
VFMJ11_0859  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
VFMJ11_0860  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
VFMJ11_0857  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
VFMJ11_0858  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
VFMJ11_2456  frdA; fumarate reductase, flavoprotein subunit [KO:K00244] [EC:1.3.5.1]
VFMJ11_2457  fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
VFMJ11_2458  fumarate reductase subunit C [KO:K00246]
VFMJ11_2459  fumarate reductase subunit D [KO:K00247]
VFMJ11_1256  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
VFMJ11_A0089  transcriptional regulator [KO:K01774] [EC:4.2.1.2]
VFMJ11_0264  mdh; malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
VFMJ11_2601  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
VFMJ11_2294  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
VFMJ11_2293  aceF; dihydrolipoyllysine-residue acetyltransferase E2 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
vfm00010  Glycolysis / Gluconeogenesis
vfm00053  Ascorbate and aldarate metabolism
vfm00061  Fatty acid biosynthesis
vfm00071  Fatty acid degradation
vfm00190  Oxidative phosphorylation
vfm00220  Arginine biosynthesis
vfm00250  Alanine, aspartate and glutamate metabolism
vfm00280  Valine, leucine and isoleucine degradation
vfm00350  Tyrosine metabolism
vfm00470  D-Amino acid metabolism
vfm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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