KEGG   PATHWAY: rbm00020
Entry
rbm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Rhizobiales bacterium NRL2
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
rbm00020  Citrate cycle (TCA cycle)
rbm00020

Module
rbm_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rbm00020]
rbm_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rbm00020]
rbm_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rbm00020]
rbm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rbm00020]
rbm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rbm00020]
Other DBs
GO: 0006099
Organism
Rhizobiales bacterium NRL2 [GN:rbm]
Gene
TEF_17900  citryl-CoA lyase [KO:K01647] [EC:2.3.3.1]
TEF_11050  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
TEF_08935  aconitate hydratase 1 [KO:K01681] [EC:4.2.1.3]
TEF_13430  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
TEF_03485  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
TEF_19570  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
TEF_19575  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
TEF_09665  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
TEF_19580  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
TEF_16165  2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
TEF_16160  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
TEF_19565  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
TEF_19560  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
TEF_20230  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
TEF_20225  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
TEF_20240  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
TEF_20235  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
TEF_07455  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
TEF_12945  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
TEF_19555  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
TEF_05140  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
TEF_04300  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
TEF_09080  transketolase [KO:K00163] [EC:1.2.4.1]
TEF_09650  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
TEF_13455  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
TEF_13460  2-oxoisovalerate dehydrogenase [KO:K00162] [EC:1.2.4.1]
TEF_09655  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
TEF_13465  hypothetical protein [KO:K00627] [EC:2.3.1.12]
TEF_09660  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
rbm00010  Glycolysis / Gluconeogenesis
rbm00053  Ascorbate and aldarate metabolism
rbm00061  Fatty acid biosynthesis
rbm00071  Fatty acid degradation
rbm00190  Oxidative phosphorylation
rbm00220  Arginine biosynthesis
rbm00250  Alanine, aspartate and glutamate metabolism
rbm00280  Valine, leucine and isoleucine degradation
rbm00350  Tyrosine metabolism
rbm00470  D-Amino acid metabolism
rbm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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