KEGG   PATHWAY: rup00020
Entry
rup00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Runella sp. SP2
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
rup00020  Citrate cycle (TCA cycle)
rup00020

Module
rup_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:rup00020]
rup_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:rup00020]
rup_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:rup00020]
rup_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:rup00020]
rup_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:rup00020]
Other DBs
GO: 0006099
Organism
Runella sp. SP2 [GN:rup]
Gene
DTQ70_04590  citrate synthase [KO:K01647] [EC:2.3.3.1]
DTQ70_11590  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
DTQ70_19640  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
DTQ70_19930  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
DTQ70_18805  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
DTQ70_18800  2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
DTQ70_07530  2-oxo acid dehydrogenase subunit E2 [KO:K00658] [EC:2.3.1.61]
DTQ70_18795  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DTQ70_26070  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DTQ70_06195  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DTQ70_06200  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DTQ70_15695  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
DTQ70_11510  ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
DTQ70_00250  fumarate reductase/succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DTQ70_00260  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
DTQ70_00245  succinate dehydrogenase [KO:K00241]
DTQ70_29280  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
DTQ70_25210  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DTQ70_13935  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
DTQ70_01380  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
DTQ70_02130  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
DTQ70_27455  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
DTQ70_00505  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
rup00010  Glycolysis / Gluconeogenesis
rup00053  Ascorbate and aldarate metabolism
rup00061  Fatty acid biosynthesis
rup00071  Fatty acid degradation
rup00190  Oxidative phosphorylation
rup00220  Arginine biosynthesis
rup00250  Alanine, aspartate and glutamate metabolism
rup00280  Valine, leucine and isoleucine degradation
rup00350  Tyrosine metabolism
rup00470  D-Amino acid metabolism
rup00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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