KEGG   PATHWAY: shai00020
Entry
shai00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Spiribacter halobius
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
shai00020  Citrate cycle (TCA cycle)
shai00020

Module
shai_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:shai00020]
shai_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:shai00020]
shai_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:shai00020]
shai_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:shai00020]
Other DBs
GO: 0006099
Organism
Spiribacter halobius [GN:shai]
Gene
LMH63_01455  citrate synthase [KO:K01647] [EC:2.3.3.1]
LMH63_07585  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
LMH63_18365  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
LMH63_18645  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
LMH63_16765  icd; isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
LMH63_00525  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
LMH63_00530  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
LMH63_00275  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LMH63_00535  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LMH63_05915  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
LMH63_02120  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
LMH63_05600  CoA-binding protein [KO:K01902] [EC:6.2.1.5]
LMH63_02115  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
LMH63_05595  acetate--CoA ligase family protein [KO:K01903] [EC:6.2.1.5]
LMH63_09665  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
LMH63_09670  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LMH63_11715  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
LMH63_09655  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
LMH63_11710  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
LMH63_09660  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
LMH63_11705  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
LMH63_10740  FAD-binding protein [KO:K00244] [EC:1.3.5.1]
LMH63_10755  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
LMH63_10750  succinate dehydrogenase [KO:K00246]
LMH63_10745  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00247]
LMH63_11230  class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
LMH63_14705  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
LMH63_10970  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
LMH63_10695  mdeB; alpha-ketoglutarate dehydrogenase [KO:K00163] [EC:1.2.4.1]
LMH63_00285  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
LMH63_00280  aceF; 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
shai00010  Glycolysis / Gluconeogenesis
shai00053  Ascorbate and aldarate metabolism
shai00061  Fatty acid biosynthesis
shai00071  Fatty acid degradation
shai00190  Oxidative phosphorylation
shai00220  Arginine biosynthesis
shai00250  Alanine, aspartate and glutamate metabolism
shai00280  Valine, leucine and isoleucine degradation
shai00350  Tyrosine metabolism
shai00470  D-Amino acid metabolism
shai00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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