KEGG   PATHWAY: dvu00020
Entry
dvu00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Nitratidesulfovibrio vulgaris Hildenborough
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
dvu00020  Citrate cycle (TCA cycle)
dvu00020

Module
dvu_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:dvu00020]
dvu_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:dvu00020]
Other DBs
GO: 0006099
Organism
Nitratidesulfovibrio vulgaris Hildenborough [GN:dvu]
Gene
DVU_0398  HMGL-like domain protein [KO:K05942] [EC:2.3.3.3]
DVU_1064  aconitate hydratase, putative [KO:K01681] [EC:4.2.1.3]
DVU_0477  icd; isocitrate dehydrogenase, NADP-dependent [KO:K00031] [EC:1.1.1.42]
DVU_1423  lpdA; 2-oxoglutarate dehydrogenase, E3 component, lipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
DVU_1569  porA; pyruvate ferredoxin oxidoreductase, alpha subunit [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DVU_1945  pyruvate ferredoxin oxidoreductase, alpha subunit, putative [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DVU_3349  pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-binding domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
DVU_1570  porB; pyruvate ferredoxin oxidoreductase, beta subunit [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DVU_1946  pyruvate ferredoxin oxidoreductase, beta subunit, putative [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DVU_3348  pyruvate ferredoxin/flavodoxin oxidoreductase, beta subunit, putative [KO:K00175] [EC:1.2.7.3 1.2.7.11]
DVU_1947  pyruvate ferredoxin oxidoreductase, gamma subunit, putative [KO:K00177] [EC:1.2.7.3]
DVU_3347  pyruvate ferredoxin/flavodoxin oxidoreductase family protein [KO:K00177] [EC:1.2.7.3]
DVU_1944  pyruvate ferredoxin oxidoreductase, iron-sulfur binding subunit, putative [KO:K00176] [EC:1.2.7.3]
DVU_3350  iron-sulfur cluster-binding protein [KO:K00176] [EC:1.2.7.3]
DVU_2137  sucCD; succinyl-CoA synthase, beta/alpha subunits [KO:K01902] [EC:6.2.1.5]
DVU_2674  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
DVU_3262  fdrA; fumarate reductase, flavoprotein subunit [KO:K00233] [EC:1.3.5.1 7.1.1.12]
DVU_3263  frdB; fumarate reductase, iron-sulfur protein [KO:K25995] [EC:1.3.5.1 7.1.1.12]
DVU_3261  frdC; fumarate reductase, cytochrome b subunit [KO:K25996]
DVU_3264  tartrate dehydratase alpha subunit, putative [KO:K01677] [EC:4.2.1.2]
DVU_3265  tartrate dehydratase beta subunit, putative [KO:K01678] [EC:4.2.1.2]
DVU_0080  fumC; fumarate hydratase, class II [KO:K01679] [EC:4.2.1.2]
DVU_1834  pyruvate carboxylase, putative [KO:K01958] [EC:6.4.1.1]
DVU_3025  poR; 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
dvu00010  Glycolysis / Gluconeogenesis
dvu00053  Ascorbate and aldarate metabolism
dvu00061  Fatty acid biosynthesis
dvu00071  Fatty acid degradation
dvu00190  Oxidative phosphorylation
dvu00220  Arginine biosynthesis
dvu00250  Alanine, aspartate and glutamate metabolism
dvu00280  Valine, leucine and isoleucine degradation
dvu00350  Tyrosine metabolism
dvu00470  D-Amino acid metabolism
dvu00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   

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