KEGG   PATHWAY: ruf00020
Entry
ruf00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Rufibacter radiotolerans
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
ruf00020  Citrate cycle (TCA cycle)
ruf00020

Module
ruf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ruf00020]
ruf_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ruf00020]
ruf_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ruf00020]
ruf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ruf00020]
ruf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ruf00020]
Other DBs
GO: 0006099
Organism
Rufibacter radiotolerans [GN:ruf]
Gene
TH63_08295  gltA; type II citrate synthase [KO:K01647] [EC:2.3.3.1]
TH63_10405  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
TH63_14735  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
TH63_17080  isocitrate dehydrogenase [KO:K00030] [EC:1.1.1.41]
TH63_19215  2-oxoglutarate dehydrogenase [KO:K00164] [EC:1.2.4.2]
TH63_13075  2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
TH63_19220  2-oxoglutarate dehydrogenase [KO:K00658] [EC:2.3.1.61]
TH63_03370  hypothetical protein [KO:K00382] [EC:1.8.1.4]
TH63_19225  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
TH63_05155  MFS transporter [KO:K00174] [EC:1.2.7.3 1.2.7.11]
TH63_05150  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
TH63_14470  succinate--CoA ligase [KO:K01902] [EC:6.2.1.5]
TH63_10300  sucC; succinyl-CoA synthetase subunit beta [KO:K01903] [EC:6.2.1.5]
TH63_10465  sdhA; succinate dehydrogenase [KO:K00239] [EC:1.3.5.1]
TH63_10470  fumarate reductase [KO:K00240] [EC:1.3.5.1]
TH63_10460  succinate dehydrogenase [KO:K00241]
TH63_17845  fumC; fumarate hydratase [KO:K01679] [EC:4.2.1.2]
TH63_12265  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
TH63_08370  malate:quinone oxidoreductase [KO:K00116] [EC:1.1.5.4]
TH63_03650  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
TH63_06745  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
TH63_17600  pyruvate dehydrogenase [KO:K00161] [EC:1.2.4.1]
TH63_09315  pyruvate dehydrogenase [KO:K00161] [EC:1.2.4.1]
TH63_05830  pyruvate dehydrogenase [KO:K00162] [EC:1.2.4.1]
TH63_09320  pyruvate dehydrogenase [KO:K00162] [EC:1.2.4.1]
TH63_05605  pyruvate dehydrogenase [KO:K00627] [EC:2.3.1.12]
TH63_09325  branched-chain alpha-keto acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
TH63_05160  pyruvate-flavodoxin 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
ruf00010  Glycolysis / Gluconeogenesis
ruf00053  Ascorbate and aldarate metabolism
ruf00061  Fatty acid biosynthesis
ruf00071  Fatty acid degradation
ruf00190  Oxidative phosphorylation
ruf00220  Arginine biosynthesis
ruf00250  Alanine, aspartate and glutamate metabolism
ruf00280  Valine, leucine and isoleucine degradation
ruf00350  Tyrosine metabolism
ruf00470  D-Amino acid metabolism
ruf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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