KEGG   PATHWAY: parp00020
Entry
parp00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Parasphingopyxis sp. CP4
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
parp00020  Citrate cycle (TCA cycle)
parp00020

Module
parp_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:parp00020]
parp_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:parp00020]
parp_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:parp00020]
parp_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:parp00020]
parp_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:parp00020]
Other DBs
GO: 0006099
Organism
Parasphingopyxis sp. CP4 [GN:parp]
Gene
HFP51_05465  citrate synthase [KO:K01647] [EC:2.3.3.1]
HFP51_12740  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
HFP51_04290  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HFP51_08370  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
HFP51_08365  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
HFP51_08355  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HFP51_14170  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HFP51_03655  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
HFP51_03660  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
HFP51_08375  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
HFP51_11880  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
HFP51_08435  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HFP51_08400  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
HFP51_08445  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
HFP51_08440  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
HFP51_12005  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
HFP51_08380  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
HFP51_04085  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
HFP51_04665  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
HFP51_04660  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
HFP51_14160  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
parp00010  Glycolysis / Gluconeogenesis
parp00053  Ascorbate and aldarate metabolism
parp00061  Fatty acid biosynthesis
parp00071  Fatty acid degradation
parp00190  Oxidative phosphorylation
parp00220  Arginine biosynthesis
parp00250  Alanine, aspartate and glutamate metabolism
parp00280  Valine, leucine and isoleucine degradation
parp00350  Tyrosine metabolism
parp00470  D-Amino acid metabolism
parp00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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