KEGG   PATHWAY: nneo00020
Entry
nneo00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Candidatus Nitrospira neomarina
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
nneo00020  Citrate cycle (TCA cycle)
nneo00020

Module
nneo_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nneo00020]
nneo_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nneo00020]
Other DBs
GO: 0006099
Organism
Candidatus Nitrospira neomarina [GN:nneo]
Gene
PQG83_08970  citrate synthase [KO:K01647] [EC:2.3.3.1]
PQG83_13715  citrate/2-methylcitrate synthase [KO:K15230] [EC:2.3.3.8]
PQG83_13720  ATP citrate lyase citrate-binding domain-containing protein [KO:K15231] [EC:2.3.3.8]
PQG83_05115  pyruvate carboxyltransferase [KO:K05942] [EC:2.3.3.3]
PQG83_13710  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
PQG83_13730  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PQG83_06640  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PQG83_13690  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
PQG83_13695  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
PQG83_08975  FAD-binding protein [KO:K00239] [EC:1.3.5.1]
PQG83_08980  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
PQG83_08985  CoB--CoM heterodisulfide reductase iron-sulfur subunit B family protein [KO:K00241]
PQG83_08415  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
PQG83_12810  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PQG83_12575  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PQG83_04980  acetyl-CoA carboxylase biotin carboxylase subunit [KO:K01959] [EC:6.4.1.1]
PQG83_04975  oadA; sodium-extruding oxaloacetate decarboxylase subunit alpha [KO:K01960] [EC:6.4.1.1]
PQG83_10275  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
PQG83_10270  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
PQG83_10265  dihydrolipoamide acetyltransferase family protein [KO:K00627] [EC:2.3.1.12]
PQG83_13515  transketolase C-terminal domain-containing protein [KO:K00169] [EC:1.2.7.1]
PQG83_13785  transketolase C-terminal domain-containing protein [KO:K00169] [EC:1.2.7.1]
PQG83_20720  porA; pyruvate ferredoxin oxidoreductase [KO:K00169] [EC:1.2.7.1]
PQG83_13510  thiamine pyrophosphate-dependent enzyme [KO:K00170] [EC:1.2.7.1]
PQG83_13805  thiamine pyrophosphate-dependent enzyme [KO:K00170] [EC:1.2.7.1]
PQG83_20725  thiamine pyrophosphate-dependent enzyme [KO:K00170] [EC:1.2.7.1]
PQG83_13505  2-oxoacid:acceptor oxidoreductase family protein [KO:K00172] [EC:1.2.7.1]
PQG83_13800  2-oxoacid:acceptor oxidoreductase family protein [KO:K00172] [EC:1.2.7.1]
PQG83_20715  2-oxoacid:acceptor oxidoreductase family protein [KO:K00172] [EC:1.2.7.1]
PQG83_13500  pyruvate ferredoxin oxidoreductase [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
nneo00010  Glycolysis / Gluconeogenesis
nneo00053  Ascorbate and aldarate metabolism
nneo00061  Fatty acid biosynthesis
nneo00071  Fatty acid degradation
nneo00190  Oxidative phosphorylation
nneo00220  Arginine biosynthesis
nneo00250  Alanine, aspartate and glutamate metabolism
nneo00280  Valine, leucine and isoleucine degradation
nneo00350  Tyrosine metabolism
nneo00470  D-Amino acid metabolism
nneo00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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