KEGG   PATHWAY: ppaf00020
Entry
ppaf00020                   Pathway                                
Name
Citrate cycle (TCA cycle) - Pelagovum pacificum
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
ppaf00020  Citrate cycle (TCA cycle)
ppaf00020

Module
ppaf_M00003  Gluconeogenesis, oxaloacetate => fructose-6P [PATH:ppaf00020]
ppaf_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ppaf00020]
ppaf_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ppaf00020]
ppaf_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ppaf00020]
ppaf_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ppaf00020]
Other DBs
GO: 0006099
Organism
Pelagovum pacificum [GN:ppaf]
Gene
I8N54_08565  gltA; citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
I8N54_07780  acnA; aconitate hydratase AcnA [KO:K01681] [EC:4.2.1.3]
I8N54_08975  NADP-dependent isocitrate dehydrogenase [KO:K00031] [EC:1.1.1.42]
I8N54_16945  2-oxoglutarate dehydrogenase E1 component [KO:K00164] [EC:1.2.4.2]
I8N54_16950  odhB; 2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase [KO:K00658] [EC:2.3.1.61]
I8N54_11185  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
I8N54_16965  lpdA; dihydrolipoyl dehydrogenase [KO:K00382] [EC:1.8.1.4]
I8N54_16940  sucD; succinate--CoA ligase subunit alpha [KO:K01902] [EC:6.2.1.5]
I8N54_16925  sucC; ADP-forming succinate--CoA ligase subunit beta [KO:K01903] [EC:6.2.1.5]
I8N54_16865  succinate dehydrogenase flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
I8N54_16850  succinate dehydrogenase iron-sulfur subunit [KO:K00240] [EC:1.3.5.1]
I8N54_16875  sdhC; succinate dehydrogenase, cytochrome b556 subunit [KO:K00241]
I8N54_16870  succinate dehydrogenase, hydrophobic membrane anchor protein [KO:K00242]
I8N54_10890  fumC; class II fumarate hydratase [KO:K01679] [EC:4.2.1.2]
I8N54_16915  mdh; malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
I8N54_05535  pyruvate carboxylase [KO:K01958] [EC:6.4.1.1]
I8N54_16160  phosphoenolpyruvate carboxykinase [KO:K01610] [EC:4.1.1.49]
I8N54_17590  transketolase [KO:K00163] [EC:1.2.4.1]
I8N54_10315  pdhA; pyruvate dehydrogenase (acetyl-transferring) E1 component subunit alpha [KO:K00161] [EC:1.2.4.1]
I8N54_10320  pyruvate dehydrogenase complex E1 component subunit beta [KO:K00162] [EC:1.2.4.1]
I8N54_10330  pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase [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
ppaf00010  Glycolysis / Gluconeogenesis
ppaf00053  Ascorbate and aldarate metabolism
ppaf00061  Fatty acid biosynthesis
ppaf00071  Fatty acid degradation
ppaf00190  Oxidative phosphorylation
ppaf00220  Arginine biosynthesis
ppaf00250  Alanine, aspartate and glutamate metabolism
ppaf00280  Valine, leucine and isoleucine degradation
ppaf00350  Tyrosine metabolism
ppaf00470  D-Amino acid metabolism
ppaf00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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