KEGG   PATHWAY: ddz00020
Entry
ddz00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Candidatus Desulfobacillus denitrificans
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
ddz00020  Citrate cycle (TCA cycle)
ddz00020

Module
ddz_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ddz00020]
ddz_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ddz00020]
ddz_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ddz00020]
ddz_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ddz00020]
ddz_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ddz00020]
Other DBs
GO: 0006099
Organism
Candidatus Desulfobacillus denitrificans [GN:ddz]
Gene
DSYM_17980  citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
DSYM_18160  aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
DSYM_18070  bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase [KO:K01682] [EC:4.2.1.3 4.2.1.99]
DSYM_09910  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
DSYM_17970  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
DSYM_17960  dihydrolipoamide succinyltransferase [KO:K00658] [EC:2.3.1.61]
DSYM_17950  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DSYM_24780  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DSYM_25950  dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
DSYM_12570  2-oxoglutarate ferredoxin oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DSYM_19080  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DSYM_12580  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DSYM_19070  2-oxoglutarate ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DSYM_23510  succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
DSYM_23520  succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
DSYM_18010  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
DSYM_18000  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
DSYM_18030  succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
DSYM_18020  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
DSYM_13280  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
DSYM_01830  fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
DSYM_18050  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
DSYM_18210  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
DSYM_07080  phosphoenolpyruvate carboxykinase, GTP-utilizing [KO:K01596] [EC:4.1.1.32]
DSYM_24750  pyruvate dehydrogenase (acetyl-transferring), homodimeric type [KO:K00163] [EC:1.2.4.1]
DSYM_00150  pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
DSYM_00140  alpha-ketoacid dehydrogenase subunit beta [KO:K00162] [EC:1.2.4.1]
DSYM_24760  dihydrolipoyllysine-residue acetyltransferase [KO:K00627] [EC:2.3.1.12]
DSYM_00130  2-oxo acid dehydrogenase subunit E2 [KO:K00627] [EC:2.3.1.12]
DSYM_27690  pyruvate ferredoxin oxidoreductase [KO:K00169] [EC:1.2.7.1]
DSYM_27700  pyruvate ferredoxin oxidoreductase [KO:K00170] [EC:1.2.7.1]
DSYM_27680  2-oxoacid:acceptor oxidoreductase [KO:K00172] [EC:1.2.7.1]
DSYM_15130  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
ddz00010  Glycolysis / Gluconeogenesis
ddz00053  Ascorbate and aldarate metabolism
ddz00061  Fatty acid biosynthesis
ddz00071  Fatty acid degradation
ddz00190  Oxidative phosphorylation
ddz00220  Arginine biosynthesis
ddz00250  Alanine, aspartate and glutamate metabolism
ddz00280  Valine, leucine and isoleucine degradation
ddz00350  Tyrosine metabolism
ddz00470  D-Amino acid metabolism
ddz00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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