KEGG   PATHWAY: tmk00020
Entry
tmk00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Temperatibacter marinus
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
tmk00020  Citrate cycle (TCA cycle)
tmk00020

Module
tmk_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:tmk00020]
tmk_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:tmk00020]
tmk_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:tmk00020]
tmk_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:tmk00020]
tmk_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:tmk00020]
Other DBs
GO: 0006099
Organism
Temperatibacter marinus [GN:tmk]
Gene
QGN29_12535  citrate synthase [KO:K01647] [EC:2.3.3.1]
QGN29_04505  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
QGN29_11395  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
QGN29_08725  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
QGN29_08730  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
QGN29_12310  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
QGN29_08735  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
QGN29_01145  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
QGN29_09935  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
QGN29_01140  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
QGN29_09940  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
QGN29_08720  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
QGN29_08715  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
QGN29_01130  FAD-binding protein [KO:K00239] [EC:1.3.5.1]
QGN29_08055  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
QGN29_08060  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
QGN29_08045  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
QGN29_08050  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
QGN29_01135  2Fe-2S iron-sulfur cluster-binding protein [KO:K00245] [EC:1.3.5.1]
QGN29_00455  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
QGN29_08710  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
QGN29_05980  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
QGN29_12330  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
QGN29_12325  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
QGN29_12320  pyruvate dehydrogenase complex dihydrolipoamide 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
tmk00010  Glycolysis / Gluconeogenesis
tmk00053  Ascorbate and aldarate metabolism
tmk00061  Fatty acid biosynthesis
tmk00071  Fatty acid degradation
tmk00190  Oxidative phosphorylation
tmk00220  Arginine biosynthesis
tmk00250  Alanine, aspartate and glutamate metabolism
tmk00280  Valine, leucine and isoleucine degradation
tmk00350  Tyrosine metabolism
tmk00470  D-Amino acid metabolism
tmk00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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