KEGG   PATHWAY: pfri00020
Entry
pfri00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Peribacillus frigoritolerans
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
pfri00020  Citrate cycle (TCA cycle)
pfri00020

Module
pfri_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:pfri00020]
pfri_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:pfri00020]
pfri_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pfri00020]
pfri_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pfri00020]
pfri_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pfri00020]
Other DBs
GO: 0006099
Organism
Peribacillus frigoritolerans [GN:pfri]
Gene
L8956_18785  citZ; citrate synthase [KO:K01659] [EC:2.3.3.5]
L8956_11465  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
L8956_18780  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
L8956_14535  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
L8956_14530  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
L8956_16745  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
L8956_05730  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
L8956_07595  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
L8956_12530  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
L8956_08665  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
L8956_08670  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
L8956_08330  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
L8956_08325  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
L8956_02970  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
L8956_18480  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
L8956_18475  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
L8956_18485  succinate dehydrogenase cytochrome b558 subunit [KO:K00241]
L8956_03235  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
L8956_05850  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
L8956_18775  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
L8956_03305  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
L8956_07740  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
L8956_23510  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
L8956_07580  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
L8956_07585  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
L8956_07590  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
L8956_12525  2-oxo acid dehydrogenase subunit E2 [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
pfri00010  Glycolysis / Gluconeogenesis
pfri00053  Ascorbate and aldarate metabolism
pfri00061  Fatty acid biosynthesis
pfri00062  Fatty acid elongation
pfri00071  Fatty acid degradation
pfri00190  Oxidative phosphorylation
pfri00220  Arginine biosynthesis
pfri00250  Alanine, aspartate and glutamate metabolism
pfri00280  Valine, leucine and isoleucine degradation
pfri00350  Tyrosine metabolism
pfri00470  D-Amino acid metabolism
pfri00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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