KEGG   PATHWAY: cfir00020
Entry
cfir00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Cytobacillus firmus
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
cfir00020  Citrate cycle (TCA cycle)
cfir00020

Module
cfir_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:cfir00020]
cfir_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:cfir00020]
cfir_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:cfir00020]
cfir_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:cfir00020]
cfir_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:cfir00020]
Other DBs
GO: 0006099
Organism
Cytobacillus firmus [GN:cfir]
Gene
NAF01_19935  citZ; citrate synthase [KO:K01647] [EC:2.3.3.1]
NAF01_10925  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
NAF01_19930  icd; NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
NAF01_11740  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
NAF01_11735  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
NAF01_08320  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NAF01_10830  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NAF01_18200  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NAF01_23180  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
NAF01_09605  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
NAF01_09610  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
NAF01_09140  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
NAF01_09135  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
NAF01_04545  acetyl-CoA hydrolase/transferase family protein [KO:K18118] [EC:2.8.3.18]
NAF01_19695  sdhA; succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
NAF01_19690  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
NAF01_19700  succinate dehydrogenase cytochrome b558 subunit [KO:K00241]
NAF01_05395  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
NAF01_06450  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
NAF01_12655  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
NAF01_19925  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
NAF01_24490  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
NAF01_08450  pyc; pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
NAF01_20505  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
NAF01_08305  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
NAF01_08310  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
NAF01_08315  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
NAF01_23185  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
cfir00010  Glycolysis / Gluconeogenesis
cfir00053  Ascorbate and aldarate metabolism
cfir00061  Fatty acid biosynthesis
cfir00071  Fatty acid degradation
cfir00190  Oxidative phosphorylation
cfir00220  Arginine biosynthesis
cfir00250  Alanine, aspartate and glutamate metabolism
cfir00280  Valine, leucine and isoleucine degradation
cfir00350  Tyrosine metabolism
cfir00470  D-Amino acid metabolism
cfir00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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