KEGG   PATHWAY: dvn00020
Entry
dvn00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Defluviicoccus vanus
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
dvn00020  Citrate cycle (TCA cycle)
dvn00020

Module
dvn_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:dvn00020]
dvn_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:dvn00020]
dvn_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:dvn00020]
Other DBs
GO: 0006099
Organism
Defluviicoccus vanus [GN:dvn]
Gene
HQ394_18745  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
HQ394_05750  acnA; aconitate hydratase AcnA [KO:K27802] [EC:4.2.1.3 4.2.1.99]
HQ394_16205  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
HQ394_17400  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
HQ394_17395  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
HQ394_17390  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
HQ394_05280  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
HQ394_05355  2-oxoacid:acceptor oxidoreductase subunit alpha [KO:K00174] [EC:1.2.7.3 1.2.7.11]
HQ394_05275  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
HQ394_05350  2-oxoacid:ferredoxin oxidoreductase subunit beta [KO:K00175] [EC:1.2.7.3 1.2.7.11]
HQ394_17405  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
HQ394_17410  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
HQ394_11475  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
HQ394_11480  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
HQ394_11465  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
HQ394_11470  sdhD; succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
HQ394_10685  succinate dehydrogenase/fumarate reductase iron-sulfur subunit [KO:K00245] [EC:1.3.5.1]
HQ394_10680  fumarate reductase subunit C [KO:K00246]
HQ394_10675  fumarate reductase subunit D [KO:K00247]
HQ394_00845  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
HQ394_06595  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
HQ394_07515  phosphoenolpyruvate carboxykinase (GTP) [KO:K01596] [EC:4.1.1.32]
HQ394_07170  hypothetical protein [KO:K00163] [EC:1.2.4.1]
HQ394_01380  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
HQ394_01370  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [KO:K00627] [EC:2.3.1.12]
HQ394_06330  nifJ; pyruvate:ferredoxin (flavodoxin) 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
dvn00010  Glycolysis / Gluconeogenesis
dvn00053  Ascorbate and aldarate metabolism
dvn00061  Fatty acid biosynthesis
dvn00071  Fatty acid degradation
dvn00190  Oxidative phosphorylation
dvn00220  Arginine biosynthesis
dvn00250  Alanine, aspartate and glutamate metabolism
dvn00280  Valine, leucine and isoleucine degradation
dvn00350  Tyrosine metabolism
dvn00470  D-Amino acid metabolism
dvn00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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