KEGG   PATHWAY: xph00020
Entry
xph00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Xanthomonas phaseoli
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
xph00020  Citrate cycle (TCA cycle)
xph00020

Module
xph_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:xph00020]
xph_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:xph00020]
xph_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:xph00020]
xph_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:xph00020]
Other DBs
GO: 0006099
Organism
Xanthomonas phaseoli [GN:xph]
Gene
XppCFBP6546_17275  XppCFBP6546P_17275; citrate synthase [KO:K01647] [EC:2.3.3.1]
XppCFBP6546_20190  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
XppCFBP6546_20205  acnB; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
XppCFBP6546_15200  XppCFBP6546P_15200; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
XppCFBP6546_06235  XppCFBP6546P_06235; isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
XppCFBP6546_03755  XppCFBP6546P_03755; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
XppCFBP6546_03760  sucB; dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
XppCFBP6546_03765  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
XppCFBP6546_16040  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
XppCFBP6546_17925  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
XppCFBP6546_17920  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
XppCFBP6546_01960  XppCFBP6546P_01960; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
XppCFBP6546_01970  XppCFBP6546P_01970; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
XppCFBP6546_01950  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
XppCFBP6546_01955  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
XppCFBP6546_04040  XppCFBP6546P_04040; fumarate hydratase [KO:K01676] [EC:4.2.1.2]
XppCFBP6546_03720  XppCFBP6546P_03720; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
XppCFBP6546_06460  XppCFBP6546P_06460; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
XppCFBP6546_08845  aceE; pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
XppCFBP6546_16030  XppCFBP6546P_16030; 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
xph00010  Glycolysis / Gluconeogenesis
xph00053  Ascorbate and aldarate metabolism
xph00061  Fatty acid biosynthesis
xph00071  Fatty acid degradation
xph00190  Oxidative phosphorylation
xph00220  Arginine biosynthesis
xph00250  Alanine, aspartate and glutamate metabolism
xph00280  Valine, leucine and isoleucine degradation
xph00350  Tyrosine metabolism
xph00470  D-Amino acid metabolism
xph00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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