KEGG   PATHWAY: skt00020
Entry
skt00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Skermanella sp. TT6
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
skt00020  Citrate cycle (TCA cycle)
skt00020

Module
skt_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:skt00020]
skt_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:skt00020]
skt_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:skt00020]
skt_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:skt00020]
skt_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:skt00020]
Other DBs
GO: 0006099
Organism
Skermanella sp. TT6 [GN:skt]
Gene
IGS68_28955  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
IGS68_13200  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
IGS68_02810  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
IGS68_02805  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
IGS68_22695  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
IGS68_23525  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
IGS68_23520  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
IGS68_12500  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
IGS68_23495  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
IGS68_33360  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
IGS68_23530  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
IGS68_33365  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
IGS68_23535  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
IGS68_14960  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
IGS68_14965  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
IGS68_14950  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
IGS68_14955  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
IGS68_06975  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
IGS68_23540  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
IGS68_24465  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
IGS68_25075  transketolase [KO:K00163] [EC:1.2.4.1]
IGS68_12485  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
IGS68_12490  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
IGS68_30820  acetoin dehydrogenase dihydrolipoyllysine-residue acetyltransferase subunit [KO:K00627] [EC:2.3.1.12]
IGS68_12495  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
IGS68_14145  acetoin dehydrogenase dihydrolipoyllysine-residue acetyltransferase subunit [KO:K00627] [EC:2.3.1.12]
IGS68_25630  nifJ; pyruvate:ferredoxin (flavodoxin) oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
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
skt00010  Glycolysis / Gluconeogenesis
skt00053  Ascorbate and aldarate metabolism
skt00061  Fatty acid biosynthesis
skt00071  Fatty acid degradation
skt00190  Oxidative phosphorylation
skt00220  Arginine biosynthesis
skt00250  Alanine, aspartate and glutamate metabolism
skt00280  Valine, leucine and isoleucine degradation
skt00350  Tyrosine metabolism
skt00470  D-Amino acid metabolism
skt00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system