KEGG   PATHWAY: pvn00020
Entry
pvn00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Candidatus Planktophila vernalis
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
pvn00020  Citrate cycle (TCA cycle)
pvn00020

Module
pvn_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:pvn00020]
pvn_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pvn00020]
Other DBs
GO: 0006099
Organism
Candidatus Planktophila vernalis [GN:pvn]
Gene
A7sIIA15_06270  citrate synthase [KO:K01647] [EC:2.3.3.1]
A7sIIA15_02890  aconitate hydratase [KO:K01681] [EC:4.2.1.3]
A7sIIA15_05815  isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
A7sIIA15_01285  kgd; 2-oxoglutarate dehydrogenase E1 component [KO:K01616] [EC:2.2.1.5 4.1.1.71 1.2.4.2 2.3.1.61]
A7sIIA15_03100  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
A7sIIA15_05850  succinyl-CoA synthetase alpha subunit [KO:K01902] [EC:6.2.1.5]
A7sIIA15_05855  succinyl-CoA synthetase beta subunit [KO:K01903] [EC:6.2.1.5]
A7sIIA15_00105  succinate dehydrogenase / fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
A7sIIA15_00110  succinate dehydrogenase / fumarate reductase, iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
A7sIIA15_06005  fumarate hydratase, class I [KO:K01676] [EC:4.2.1.2]
A7sIIA15_05820  malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
A7sIIA15_01745  pyruvate dehydrogenase E1 component [KO:K00163] [EC:1.2.4.1]
A7sIIA15_03095  2-oxoglutarate dehydrogenase E2 component (dihydrolipoamide succinyltransferase) [KO:K00627] [EC:2.3.1.12]
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
pvn00010  Glycolysis / Gluconeogenesis
pvn00053  Ascorbate and aldarate metabolism
pvn00061  Fatty acid biosynthesis
pvn00071  Fatty acid degradation
pvn00190  Oxidative phosphorylation
pvn00220  Arginine biosynthesis
pvn00250  Alanine, aspartate and glutamate metabolism
pvn00280  Valine, leucine and isoleucine degradation
pvn00350  Tyrosine metabolism
pvn00470  D-Amino acid metabolism
pvn00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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