KEGG   PATHWAY: dbr00020
Entry
dbr00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Desulfarculus baarsii
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
dbr00020  Citrate cycle (TCA cycle)
dbr00020

Module
dbr_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:dbr00020]
dbr_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:dbr00020]
dbr_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:dbr00020]
dbr_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:dbr00020]
Other DBs
GO: 0006099
Organism
Desulfarculus baarsii [GN:dbr]
Gene
Deba_1491  citrate synthase I [KO:K01647] [EC:2.3.3.1]
Deba_2192  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
Deba_1275  Isocitrate dehydrogenase (NADP(+)) [KO:K00031] [EC:1.1.1.42]
Deba_2198  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Deba_2981  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Deba_1953  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Deba_2361  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Deba_2851  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Deba_1038  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Deba_1952  thiamine pyrophosphate protein domain protein TPP-binding protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Deba_2362  thiamine pyrophosphate protein domain protein TPP-binding protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Deba_2850  2-oxoglutarate synthase [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Deba_1037  pyruvate ferredoxin/flavodoxin oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Deba_1951  Pyruvate/ketoisovalerate oxidoreductase [KO:K00177] [EC:1.2.7.3]
Deba_2363  Pyruvate/ketoisovalerate oxidoreductase [KO:K00177] [EC:1.2.7.3]
Deba_2849  Pyruvate/ketoisovalerate oxidoreductase [KO:K00177] [EC:1.2.7.3]
Deba_1954  4Fe-4S ferredoxin iron-sulfur binding domain protein [KO:K00176] [EC:1.2.7.3]
Deba_2360  4Fe-4S ferredoxin iron-sulfur binding domain protein [KO:K00176] [EC:1.2.7.3]
Deba_2852  4Fe-4S ferredoxin iron-sulfur binding domain protein [KO:K00176] [EC:1.2.7.3]
Deba_1184  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Deba_1185  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Deba_1089  succinate dehydrogenase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Deba_1088  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Deba_1091  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Deba_1090  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
Deba_1093  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, alpha subunit [KO:K01677] [EC:4.2.1.2]
Deba_1092  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, beta subunit [KO:K01678] [EC:4.2.1.2]
Deba_1366  malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
Deba_1368  Conserved carboxylase region [KO:K01960] [EC:6.4.1.1]
Deba_2980  catalytic domain of components of various dehydrogenase complexes [KO:K00627] [EC:2.3.1.12]
Deba_3202  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00169] [EC:1.2.7.1]
Deba_3201  thiamine pyrophosphate protein domain protein TPP-binding protein [KO:K00170] [EC:1.2.7.1]
Deba_3204  pyruvate/ketoisovalerate oxidoreductase, gamma subunit [KO:K00172] [EC:1.2.7.1]
Deba_3203  pyruvate ferredoxin/flavodoxin oxidoreductase, delta subunit [KO:K00171] [EC:1.2.7.1]
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
dbr00010  Glycolysis / Gluconeogenesis
dbr00053  Ascorbate and aldarate metabolism
dbr00061  Fatty acid biosynthesis
dbr00071  Fatty acid degradation
dbr00190  Oxidative phosphorylation
dbr00220  Arginine biosynthesis
dbr00250  Alanine, aspartate and glutamate metabolism
dbr00280  Valine, leucine and isoleucine degradation
dbr00350  Tyrosine metabolism
dbr00470  D-Amino acid metabolism
dbr00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

DBGET integrated database retrieval system