KEGG   PATHWAY: dgi00020
Entry
dgi00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Desulfoscipio gibsoniae
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
dgi00020  Citrate cycle (TCA cycle)
dgi00020

Module
dgi_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:dgi00020]
dgi_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:dgi00020]
dgi_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:dgi00020]
dgi_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:dgi00020]
Other DBs
GO: 0006099
Organism
Desulfoscipio gibsoniae [GN:dgi]
Gene
Desgi_2412  citrate synthase [KO:K01647] [EC:2.3.3.1]
Desgi_1576  aconitate hydratase, putative, Aquifex type [KO:K01681] [EC:4.2.1.3]
Desgi_4665  isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
Desgi_2587  2-oxoacid:ferredoxin oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Desgi_3043  2-oxoacid:ferredoxin oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Desgi_0085  2-oxoacid:ferredoxin oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Desgi_0086  2-oxoacid:ferredoxin oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Desgi_2586  2-oxoacid:ferredoxin oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Desgi_2095  2-oxoacid:ferredoxin oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Desgi_3042  2-oxoacid:ferredoxin oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Desgi_0087  2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family [KO:K00177] [EC:1.2.7.3]
Desgi_2585  2-oxoacid:ferredoxin oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
Desgi_3041  2-oxoacid:ferredoxin oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
Desgi_0088  hypothetical protein [KO:K00176] [EC:1.2.7.3]
Desgi_2588  hypothetical protein [KO:K00176] [EC:1.2.7.3]
Desgi_3044  indolepyruvate ferredoxin oxidreductase, alpha/beta subunit [KO:K00176] [EC:1.2.7.3]
Desgi_1955  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Desgi_1954  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Desgi_0080  succinate dehydrogenase/fumarate reductase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Desgi_0079  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Desgi_0077  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
Desgi_0078  succinate dehydrogenase, hydrophobic anchor subunit [KO:K00242]
Desgi_3997  ubiquinone-dependent succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00233] [EC:1.3.5.1 7.1.1.12]
Desgi_3998  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K25995] [EC:1.3.5.1 7.1.1.12]
Desgi_3996  succinate dehydrogenase/fumarate reductase, cytochrome b subunit [KO:K25996]
Desgi_1952  hydro-lyase, Fe-S type, tartrate/fumarate subfamily [KO:K01677] [EC:4.2.1.2]
Desgi_0075  hydro-lyase, Fe-S type, tartrate/fumarate subfamily [KO:K01677] [EC:4.2.1.2]
Desgi_1953  hydro-lyase family enzyme, Fe-S type, tartrate/fumarate subfamily [KO:K01678] [EC:4.2.1.2]
Desgi_1960  malate dehydrogenase, NAD-dependent [KO:K00024] [EC:1.1.1.37]
Desgi_1961  pyruvate/oxaloacetate carboxyltransferase [KO:K01960] [EC:6.4.1.1]
Desgi_2333  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Desgi_4178  alkylhydroperoxidase AhpD family core domain protein [KO:K00627] [EC:2.3.1.12]
Desgi_1127  2-oxoacid:ferredoxin oxidoreductase, alpha subunit [KO:K00169] [EC:1.2.7.1]
Desgi_1125  2-oxoacid:acceptor oxidoreductase, gamma subunit, pyruvate/2-ketoisovalerate family [KO:K00172] [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
dgi00010  Glycolysis / Gluconeogenesis
dgi00061  Fatty acid biosynthesis
dgi00071  Fatty acid degradation
dgi00190  Oxidative phosphorylation
dgi00220  Arginine biosynthesis
dgi00250  Alanine, aspartate and glutamate metabolism
dgi00280  Valine, leucine and isoleucine degradation
dgi00350  Tyrosine metabolism
dgi00470  D-Amino acid metabolism
dgi00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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