KEGG   PATHWAY: ppn00020
Entry
ppn00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Paludibacter propionicigenes
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
ppn00020  Citrate cycle (TCA cycle)
ppn00020

Module
ppn_M00009  Citrate cycle (TCA cycle, Krebs cycle) [PATH:ppn00020]
ppn_M00010  Citrate cycle, first carbon oxidation, oxaloacetate => 2-oxoglutarate [PATH:ppn00020]
ppn_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:ppn00020]
ppn_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:ppn00020]
Other DBs
GO: 0006099
Organism
Paludibacter propionicigenes [GN:ppn]
Gene
Palpr_1042  Citrate synthase [KO:K01647] [EC:2.3.3.1]
Palpr_1041  aconitase [KO:K01681] [EC:4.2.1.3]
Palpr_1044  isocitrate dehydrogenase (NADP) [KO:K00031] [EC:1.1.1.42]
Palpr_2286  dihydrolipoamide dehydrogenase [KO:K00382] [EC:1.8.1.4]
Palpr_1927  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Palpr_0520  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Palpr_1928  2-oxoglutarate synthase [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Palpr_0519  thiamine pyrophosphate TPP-binding domain-containing protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Palpr_0518  2-oxoglutarate ferredoxin oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
Palpr_0521  hypothetical protein [KO:K00176] [EC:1.2.7.3]
Palpr_1415  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Palpr_1414  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Palpr_2981  succinate dehydrogenase subunit A [KO:K00239] [EC:1.3.5.1]
Palpr_2983  succinate dehydrogenase subunit B [KO:K00240] [EC:1.3.5.1]
Palpr_2980  succinate dehydrogenase subunit C [KO:K00241]
Palpr_1879  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, beta subunit [KO:K01676] [EC:4.2.1.2]
Palpr_2611  malate dehydrogenase (NAD) [KO:K00024] [EC:1.1.1.37]
Palpr_0912  Pyruvate carboxylase [KO:K01960] [EC:6.4.1.1]
Palpr_2112  phosphoenolpyruvate carboxykinase (ATP) [KO:K01610] [EC:4.1.1.49]
Palpr_0370  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
ppn00010  Glycolysis / Gluconeogenesis
ppn00053  Ascorbate and aldarate metabolism
ppn00061  Fatty acid biosynthesis
ppn00190  Oxidative phosphorylation
ppn00220  Arginine biosynthesis
ppn00250  Alanine, aspartate and glutamate metabolism
ppn00280  Valine, leucine and isoleucine degradation
ppn00350  Tyrosine metabolism
ppn00470  D-Amino acid metabolism
ppn00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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