KEGG   PATHWAY: ddf00020
Entry
ddf00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Deferribacter desulfuricans
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
ddf00020  Citrate cycle (TCA cycle)
ddf00020

Module
ddf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ddf00020]
ddf_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ddf00020]
ddf_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ddf00020]
ddf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ddf00020]
ddf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ddf00020]
Other DBs
GO: 0006099
Organism
Deferribacter desulfuricans [GN:ddf]
Gene
DEFDS_0814  gltA; citrate synthase [KO:K01647] [EC:2.3.3.1]
DEFDS_0679  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
DEFDS_0917  aconitate hydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DEFDS_0918  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
DEFDS_1513  mercuric reductase [KO:K00382] [EC:1.8.1.4]
DEFDS_0634  2-oxoacid oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DEFDS_0923  2-oxoglutarate ferredoxin oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DEFDS_0805  2-oxoacid oxidoreductase, gamma-alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DEFDS_0635  2-oxoacid oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DEFDS_0924  2-oxoglutarate ferredoxin oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DEFDS_0804  2-oxoacid oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DEFDS_0636  2-oxoacid oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
DEFDS_0925  2-oxoglutarate ferredoxin oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
DEFDS_0633  2-oxoacid oxidoreductase, delta subunit [KO:K00176] [EC:1.2.7.3]
DEFDS_0922  2-oxoglutarate ferredoxin oxidoreductase, delta subunit [KO:K00176] [EC:1.2.7.3]
DEFDS_0921  sucD; succinyl-CoA synthase, alpha subunit [KO:K01902] [EC:6.2.1.5]
DEFDS_0920  sucC; succinyl-CoA synthase, beta subunit [KO:K01903] [EC:6.2.1.5]
DEFDS_0686  sdhA; succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DEFDS_0685  sdhB; succinate dehydrogenase, iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
DEFDS_0688  sdhC; succinate dehydrogenase, cytochrome b subunit [KO:K00241]
DEFDS_0687  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
DEFDS_0916  fumarate hydratase, class I, alpha subunit [KO:K01676] [EC:4.2.1.2]
DEFDS_0915  fumarate hydratase, class I, beta subunit [KO:K01678] [EC:4.2.1.2]
DEFDS_0234  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
DEFDS_0919  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DEFDS_1275  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
DEFDS_1461  pckA; phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
DEFDS_0568  pyruvate:ferredoxin 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
ddf00010  Glycolysis / Gluconeogenesis
ddf00061  Fatty acid biosynthesis
ddf00071  Fatty acid degradation
ddf00190  Oxidative phosphorylation
ddf00220  Arginine biosynthesis
ddf00250  Alanine, aspartate and glutamate metabolism
ddf00280  Valine, leucine and isoleucine degradation
ddf00350  Tyrosine metabolism
ddf00470  D-Amino acid metabolism
ddf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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