KEGG   PATHWAY: bsei00020
Entry
bsei00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Bradyrhizobium sediminis
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
bsei00020  Citrate cycle (TCA cycle)
bsei00020

Module
bsei_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:bsei00020]
bsei_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:bsei00020]
bsei_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:bsei00020]
bsei_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:bsei00020]
bsei_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:bsei00020]
Other DBs
GO: 0006099
Organism
Bradyrhizobium sediminis [GN:bsei]
Gene
KMZ68_25110  citrate synthase family protein [KO:K01647] [EC:2.3.3.1]
KMZ68_25115  citrate synthase/methylcitrate synthase [KO:K01647] [EC:2.3.3.1]
KMZ68_14810  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
KMZ68_01825  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
KMZ68_17930  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
KMZ68_01895  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
KMZ68_01900  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
KMZ68_01915  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
KMZ68_14615  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
KMZ68_06505  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
KMZ68_06500  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
KMZ68_01890  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
KMZ68_01880  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
KMZ68_01555  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
KMZ68_01550  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
KMZ68_01565  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
KMZ68_01560  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
KMZ68_18160  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
KMZ68_20690  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
KMZ68_01875  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
KMZ68_24510  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
KMZ68_09050  transketolase [KO:K00163] [EC:1.2.4.1]
KMZ68_07375  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
KMZ68_14640  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
KMZ68_07380  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
KMZ68_14635  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
KMZ68_14625  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
bsei00010  Glycolysis / Gluconeogenesis
bsei00053  Ascorbate and aldarate metabolism
bsei00061  Fatty acid biosynthesis
bsei00071  Fatty acid degradation
bsei00190  Oxidative phosphorylation
bsei00220  Arginine biosynthesis
bsei00250  Alanine, aspartate and glutamate metabolism
bsei00280  Valine, leucine and isoleucine degradation
bsei00350  Tyrosine metabolism
bsei00470  D-Amino acid metabolism
bsei00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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