KEGG   PATHWAY: parr00020
Entry
parr00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Paracoccus sp. Arc7-R13
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
parr00020  Citrate cycle (TCA cycle)
parr00020

Module
parr_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:parr00020]
parr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:parr00020]
parr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:parr00020]
parr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:parr00020]
parr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:parr00020]
Other DBs
GO: 0006099
Organism
Paracoccus sp. Arc7-R13 [GN:parr]
Gene
EOJ32_05095  citrate synthase [KO:K01647] [EC:2.3.3.1]
EOJ32_07675  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
EOJ32_18490  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
EOJ32_15255  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
EOJ32_08505  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
EOJ32_08500  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
EOJ32_16400  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EOJ32_08485  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EOJ32_13090  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
EOJ32_08515  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
EOJ32_08520  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
EOJ32_08570  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
EOJ32_08590  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
EOJ32_08560  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
EOJ32_08565  succinate dehydrogenase [KO:K00242]
EOJ32_13055  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
EOJ32_01685  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
EOJ32_08530  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
EOJ32_13285  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
EOJ32_05375  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
EOJ32_08100  transketolase [KO:K00163] [EC:1.2.4.1]
EOJ32_14845  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
EOJ32_14850  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
EOJ32_14855  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
parr00010  Glycolysis / Gluconeogenesis
parr00053  Ascorbate and aldarate metabolism
parr00061  Fatty acid biosynthesis
parr00071  Fatty acid degradation
parr00190  Oxidative phosphorylation
parr00220  Arginine biosynthesis
parr00250  Alanine, aspartate and glutamate metabolism
parr00280  Valine, leucine and isoleucine degradation
parr00350  Tyrosine metabolism
parr00470  D-Amino acid metabolism
parr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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