KEGG   PATHWAY: tbd00020
Entry
tbd00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Thiobacillus denitrificans
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
tbd00020  Citrate cycle (TCA cycle)
tbd00020

Module
tbd_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:tbd00020]
tbd_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:tbd00020]
Other DBs
GO: 0006099
Organism
Thiobacillus denitrificans [GN:tbd]
Gene
Tbd_1187  Citrate synthase I [KO:K01647] [EC:2.3.3.1]
Tbd_0891  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
Tbd_0854  isocitrate dehydrogenase (NADP) [KO:K00031] [EC:1.1.1.42]
Tbd_1188  2-oxoglutarate dehydrogenase, E1 component [KO:K00164] [EC:1.2.4.2]
Tbd_1189  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
Tbd_0652  Pyruvate/2-oxoglutarate dehydrogenase complex dihydrolipoamide dehydrogenase E3 component [KO:K00382] [EC:1.8.1.4]
Tbd_0806  succinyl-CoA ligase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Tbd_0805  succinyl-CoA synthase, beta subunit [KO:K01903] [EC:6.2.1.5]
Tbd_1184  succinate dehydrogenase [KO:K00239] [EC:1.3.5.1]
Tbd_1185  succinate dehydrogenase [KO:K00240] [EC:1.3.5.1]
Tbd_1182  succinate dehydrogenase cytochrome b-556 subunit [KO:K00241]
Tbd_1183  succinate dehydrogenase, cytochrome b subunit [KO:K00242]
Tbd_1555  acetyl-CoA carboxylase, biotin carboxylase [KO:K01959] [EC:6.4.1.1]
Tbd_1556  oxaloacetate decarboxylase, alpha subunit [KO:K01960] [EC:6.4.1.1]
Tbd_0655  dehydrogenase complex, E1 component, alpha subunit [KO:K00161] [EC:1.2.4.1]
Tbd_0654  pyruvate dehydrogenase E1 beta subunit [KO:K00162] [EC:1.2.4.1]
Tbd_2468  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
tbd00010  Glycolysis / Gluconeogenesis
tbd00053  Ascorbate and aldarate metabolism
tbd00061  Fatty acid biosynthesis
tbd00071  Fatty acid degradation
tbd00190  Oxidative phosphorylation
tbd00220  Arginine biosynthesis
tbd00250  Alanine, aspartate and glutamate metabolism
tbd00280  Valine, leucine and isoleucine degradation
tbd00350  Tyrosine metabolism
tbd00470  D-Amino acid metabolism
tbd00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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