KEGG   PATHWAY: shz00020
Entry
shz00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Shinella sp. HZN7
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
shz00020  Citrate cycle (TCA cycle)
shz00020

Module
shz_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:shz00020]
shz_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:shz00020]
shz_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:shz00020]
shz_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:shz00020]
Other DBs
GO: 0006099
Organism
Shinella sp. HZN7 [GN:shz]
Gene
shn_08640  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
shn_19495  aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
shn_28395  aconitate hydratase 1 [KO:K27802] [EC:4.2.1.3 4.2.1.99]
shn_29700  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
shn_08585  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
shn_18625  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
shn_18620  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
shn_22405  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
shn_09735  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
shn_32685  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
shn_18595  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
shn_22410  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
shn_18630  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
shn_18635  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
shn_18660  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
shn_18655  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
shn_18670  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
shn_18665  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
shn_10000  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
shn_18640  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
shn_19515  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
shn_20160  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
shn_09765  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
shn_09760  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
shn_09755  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
shn_32920  hypothetical protein [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
shz00010  Glycolysis / Gluconeogenesis
shz00053  Ascorbate and aldarate metabolism
shz00061  Fatty acid biosynthesis
shz00071  Fatty acid degradation
shz00190  Oxidative phosphorylation
shz00220  Arginine biosynthesis
shz00250  Alanine, aspartate and glutamate metabolism
shz00280  Valine, leucine and isoleucine degradation
shz00350  Tyrosine metabolism
shz00470  D-Amino acid metabolism
shz00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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