KEGG   PATHWAY: pye00020
Entry
pye00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Paracoccus yeei
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
pye00020  Citrate cycle (TCA cycle)
pye00020

Module
pye_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pye00020]
pye_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pye00020]
pye_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pye00020]
pye_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pye00020]
pye_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pye00020]
Other DBs
GO: 0006099
Organism
Paracoccus yeei [GN:pye]
Gene
A6J80_04310  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
A6J80_14350  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
A6J80_13710  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
A6J80_13260  sucA; 2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
A6J80_13255  dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
A6J80_13240  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
A6J80_14910  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
A6J80_13270  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
A6J80_13280  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
A6J80_14780  succinate CoA transferase [KO:K18118] [EC:2.8.3.18]
A6J80_13330  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
A6J80_13345  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
A6J80_13320  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
A6J80_13325  succinate dehydrogenase [KO:K00242]
A6J80_06440  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
A6J80_13285  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
A6J80_05205  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
A6J80_04805  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
A6J80_12755  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
A6J80_12750  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
A6J80_12745  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
pye00010  Glycolysis / Gluconeogenesis
pye00053  Ascorbate and aldarate metabolism
pye00061  Fatty acid biosynthesis
pye00071  Fatty acid degradation
pye00190  Oxidative phosphorylation
pye00220  Arginine biosynthesis
pye00250  Alanine, aspartate and glutamate metabolism
pye00280  Valine, leucine and isoleucine degradation
pye00350  Tyrosine metabolism
pye00470  D-Amino acid metabolism
pye00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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