KEGG   PATHWAY: pmer00020
Entry
pmer00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Parabacteroides merdae
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
pmer00020  Citrate cycle (TCA cycle)
pmer00020

Module
pmer_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pmer00020]
pmer_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pmer00020]
pmer_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pmer00020]
Other DBs
GO: 0006099
Organism
Parabacteroides merdae [GN:pmer]
Gene
INE87_00969  gltA; Citrate synthase [KO:K01647] [EC:2.3.3.1]
INE87_00971  acnA; Aconitate hydratase A [KO:K01681] [EC:4.2.1.3]
INE87_00970  icd; Isocitrate dehydrogenase (NADP) [KO:K00031] [EC:1.1.1.42]
INE87_00498  pdhC; Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex [KO:K00658] [EC:2.3.1.61]
INE87_00500  lpd; Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
INE87_02580  Dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
INE87_00121  korA_1; 2-oxoglutarate oxidoreductase subunit KorA [KO:K00174] [EC:1.2.7.3 1.2.7.11]
INE87_02453  korA_2; 2-oxoglutarate oxidoreductase subunit KorA [KO:K00174] [EC:1.2.7.3 1.2.7.11]
INE87_00119  korB_1; 2-oxoglutarate oxidoreductase subunit KorB [KO:K00175] [EC:1.2.7.3 1.2.7.11]
INE87_02452  korB_2; 2-oxoglutarate oxidoreductase subunit KorB [KO:K00175] [EC:1.2.7.3 1.2.7.11]
INE87_00118  padE; NADH-dependent phenylglyoxylate dehydrogenase subunit gamma [KO:K00177] [EC:1.2.7.3]
INE87_00122  4Fe-4S binding domain protein [KO:K00176] [EC:1.2.7.3]
INE87_02845  frdA; Fumarate reductase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
INE87_02846  frdB; Fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
INE87_02844  sdhC_b558_fam: succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family [KO:K00241]
INE87_02352  fumA; Fumarate hydratase class I, aerobic [KO:K01676] [EC:4.2.1.2]
INE87_00517  mdh_1; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
INE87_03610  mdh_2; Malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
INE87_02290  cfiA_2; 2-oxoglutarate carboxylase large subunit [KO:K01960] [EC:6.4.1.1]
INE87_02449  pckA; Phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
INE87_01039  Pyruvate:ferredoxin oxidoreductase [KO:K03737] [EC:1.2.7.1 1.2.7.-]
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
pmer00010  Glycolysis / Gluconeogenesis
pmer00061  Fatty acid biosynthesis
pmer00190  Oxidative phosphorylation
pmer00220  Arginine biosynthesis
pmer00250  Alanine, aspartate and glutamate metabolism
pmer00280  Valine, leucine and isoleucine degradation
pmer00350  Tyrosine metabolism
pmer00470  D-Amino acid metabolism
pmer00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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