KEGG   PATHWAY: nall00020
Entry
nall00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Candidatus Nitrospira allomarina
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
nall00020  Citrate cycle (TCA cycle)
nall00020

Module
nall_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:nall00020]
nall_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:nall00020]
Other DBs
GO: 0006099
Organism
Candidatus Nitrospira allomarina [GN:nall]
Gene
PP769_13880  citrate/2-methylcitrate synthase [KO:K01647] [EC:2.3.3.1]
PP769_17875  citrate synthase [KO:K01647] [EC:2.3.3.1]
PP769_02535  citrate/2-methylcitrate synthase [KO:K15230] [EC:2.3.3.8]
PP769_02540  ATP citrate lyase citrate-binding domain-containing protein [KO:K15231] [EC:2.3.3.8]
PP769_02530  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
PP769_02550  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
PP769_15565  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
PP769_02510  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
PP769_02515  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
PP769_17880  FAD-binding protein [KO:K00239] [EC:1.3.5.1]
PP769_17885  sdhB; succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
PP769_17890  CoB--CoM heterodisulfide reductase iron-sulfur subunit B family protein [KO:K00241]
PP769_17345  fumarate hydratase [KO:K01676] [EC:4.2.1.2]
PP769_01615  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
PP769_01365  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
PP769_14155  acetyl-CoA carboxylase biotin carboxylase subunit [KO:K01959] [EC:6.4.1.1]
PP769_14150  oadA; sodium-extruding oxaloacetate decarboxylase subunit alpha [KO:K01960] [EC:6.4.1.1]
PP769_18925  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
PP769_18920  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
PP769_18915  dihydrolipoamide acetyltransferase family protein [KO:K00627] [EC:2.3.1.12]
PP769_09420  porA; pyruvate ferredoxin oxidoreductase [KO:K00169] [EC:1.2.7.1]
PP769_02325  transketolase C-terminal domain-containing protein [KO:K00169] [EC:1.2.7.1]
PP769_02605  transketolase C-terminal domain-containing protein [KO:K00169] [EC:1.2.7.1]
PP769_09425  thiamine pyrophosphate-dependent enzyme [KO:K00170] [EC:1.2.7.1]
PP769_02320  thiamine pyrophosphate-dependent enzyme [KO:K00170] [EC:1.2.7.1]
PP769_02625  thiamine pyrophosphate-dependent enzyme [KO:K00170] [EC:1.2.7.1]
PP769_09415  2-oxoacid:acceptor oxidoreductase family protein [KO:K00172] [EC:1.2.7.1]
PP769_02315  2-oxoacid:acceptor oxidoreductase family protein [KO:K00172] [EC:1.2.7.1]
PP769_02620  2-oxoacid:acceptor oxidoreductase family protein [KO:K00172] [EC:1.2.7.1]
PP769_02310  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
nall00010  Glycolysis / Gluconeogenesis
nall00053  Ascorbate and aldarate metabolism
nall00061  Fatty acid biosynthesis
nall00071  Fatty acid degradation
nall00190  Oxidative phosphorylation
nall00220  Arginine biosynthesis
nall00250  Alanine, aspartate and glutamate metabolism
nall00280  Valine, leucine and isoleucine degradation
nall00350  Tyrosine metabolism
nall00470  D-Amino acid metabolism
nall00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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