KEGG   PATHWAY: xfn00020
Entry
xfn00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Xylella fastidiosa M23
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
xfn00020  Citrate cycle (TCA cycle)
xfn00020

Module
xfn_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:xfn00020]
xfn_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:xfn00020]
xfn_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:xfn00020]
xfn_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:xfn00020]
Other DBs
GO: 0006099
Organism
Xylella fastidiosa M23 [GN:xfn]
Gene
XfasM23_0787  citrate synthase I [KO:K01647] [EC:2.3.3.1]
XfasM23_0224  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
XfasM23_0227  aconitate hydratase 2 [KO:K01682] [EC:4.2.1.3 4.2.1.99]
XfasM23_2159  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
XfasM23_2077  Isocitrate dehydrogenase (NAD(+)) [KO:K00030] [EC:1.1.1.41]
XfasM23_0803  2-oxoglutarate dehydrogenase, E1 subunit [KO:K00164] [EC:1.2.4.2]
XfasM23_0802  2-oxoglutarate dehydrogenase, E2 subunit, dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
XfasM23_1911  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
XfasM23_0800  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
XfasM23_2038  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
XfasM23_2037  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
XfasM23_0344  succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
XfasM23_0345  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
XfasM23_0342  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
XfasM23_0343  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
XfasM23_1000  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, alpha subunit [KO:K01676] [EC:4.2.1.2]
XfasM23_0807  fumarate lyase [KO:K01679] [EC:4.2.1.2]
XfasM23_0485  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
XfasM23_1853  malate--quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
XfasM23_1590  2-oxo-acid dehydrogenase E1 subunit, homodimeric type [KO:K00163] [EC:1.2.4.1]
XfasM23_1910  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
xfn00010  Glycolysis / Gluconeogenesis
xfn00053  Ascorbate and aldarate metabolism
xfn00061  Fatty acid biosynthesis
xfn00190  Oxidative phosphorylation
xfn00220  Arginine biosynthesis
xfn00250  Alanine, aspartate and glutamate metabolism
xfn00280  Valine, leucine and isoleucine degradation
xfn00350  Tyrosine metabolism
xfn00470  D-Amino acid metabolism
xfn00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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