KEGG   PATHWAY: pfm00020
Entry
pfm00020                    Pathway                                
Name
Citrate cycle (TCA cycle) - Pyrolobus fumarii
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
pfm00020  Citrate cycle (TCA cycle)
pfm00020

Module
pfm_M00011  Citrate cycle, second carbon oxidation, 2-oxoglutarate => oxaloacetate [PATH:pfm00020]
pfm_M00307  Pyruvate oxidation, pyruvate => acetyl-CoA [PATH:pfm00020]
Other DBs
GO: 0006099
Organism
Pyrolobus fumarii [GN:pfm]
Gene
Pyrfu_1311  Citrate (Si)-synthase [KO:K01647] [EC:2.3.3.1]
Pyrfu_1059  Isocitrate dehydrogenase (NAD(+)) [KO:K00030] [EC:1.1.1.41]
Pyrfu_1144  FAD-dependent pyridine nucleotide-disulfide oxidoreductase [KO:K00382] [EC:1.8.1.4]
Pyrfu_1274  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00174] [EC:1.2.7.3 1.2.7.11]
Pyrfu_1273  thiamine pyrophosphate TPP-binding domain-containing protein [KO:K00175] [EC:1.2.7.3 1.2.7.11]
Pyrfu_1272  pyruvate/ketoisovalerate oxidoreductase, gamma subunit [KO:K00177] [EC:1.2.7.3]
Pyrfu_1271  4Fe-4S ferredoxin iron-sulfur binding domain-containing protein [KO:K00176] [EC:1.2.7.3]
Pyrfu_1215  succinyl-CoA synthetase, alpha subunit [KO:K01902] [EC:6.2.1.5]
Pyrfu_1216  succinyl-CoA synthetase, beta subunit [KO:K01903] [EC:6.2.1.5]
Pyrfu_1277  succinate dehydrogenase or fumarate reductase, flavoprotein subunit [KO:K00239] [EC:1.3.5.1]
Pyrfu_1278  succinate dehydrogenase and fumarate reductase iron-sulfur protein [KO:K00240] [EC:1.3.5.1]
Pyrfu_1279  protein of unknown function DUF224 cysteine-rich region domain protein [KO:K00241]
Pyrfu_1276  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, alpha subunit [KO:K01677] [EC:4.2.1.2]
Pyrfu_1039  hydro-lyase, Fe-S type, tartrate/fumarate subfamily, beta subunit [KO:K01678] [EC:4.2.1.2]
Pyrfu_0636  Lactate/malate dehydrogenase [KO:K00024] [EC:1.1.1.37]
Pyrfu_0709  pyruvate flavodoxin/ferredoxin oxidoreductase domain protein [KO:K00169] [EC:1.2.7.1]
Pyrfu_0708  thiamine pyrophosphate TPP-binding domain-containing protein [KO:K00170] [EC:1.2.7.1]
Pyrfu_0711  pyruvate/ketoisovalerate oxidoreductase, gamma subunit [KO:K00172] [EC:1.2.7.1]
Pyrfu_0710  pyruvate ferredoxin/flavodoxin oxidoreductase, delta subunit [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
pfm00010  Glycolysis / Gluconeogenesis
pfm00061  Fatty acid biosynthesis
pfm00071  Fatty acid degradation
pfm00190  Oxidative phosphorylation
pfm00220  Arginine biosynthesis
pfm00250  Alanine, aspartate and glutamate metabolism
pfm00280  Valine, leucine and isoleucine degradation
pfm00350  Tyrosine metabolism
pfm00470  D-Amino acid metabolism
pfm00630  Glyoxylate and dicarboxylate metabolism
KO pathway
ko00020   
LinkDB

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