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Literature summary extracted from

  • Reisch, C.R.; Moran, M.A.; Whitman, W.B.
    Dimethylsulfoniopropionate-dependent demethylase (DmdA) from Pelagibacter ubique and Silicibacter pomeroyi (2008), J. Bacteriol., 190, 8018-8024.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

EC Number Cloned (Comment) Organism
2.1.1.269
-
 Candidatus Pelagibacter ubique
2.1.1.269
-
 Ruegeria pomeroyi

Inhibitors

EC Number Inhibitors Comment Organism Structure
2.1.1.269 3-(methylthio)propanoate
-
 Candidatus Pelagibacter ubique
2.1.1.269 dimethylsulfoniobutanoate substrate analog, weak inhibitor Candidatus Pelagibacter ubique
2.1.1.269 dimethylsulfoniopentanoate substrate analog, weak inhibitor Candidatus Pelagibacter ubique
2.1.1.269 methylmercaptopropionate product inhibition Candidatus Pelagibacter ubique
2.1.1.269 MgCl2 100 mM, 20% inhibition Candidatus Pelagibacter ubique
2.1.1.269 MgCl2 100 mM, 20% inhibition Ruegeria pomeroyi
2.1.1.269 additional information not inhibitory: 400 mM of (NH4)2SO4, K2HPO4, MgSO4, Na-acetate, NaCl, and KCl Candidatus Pelagibacter ubique
2.1.1.269 additional information not inhibitory: 400 mM of (NH4)2SO4, K2HPO4, MgSO4, Na-acetate, NaCl, and KCl Ruegeria pomeroyi

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
2.1.1.269 0.21
-
 tetrahydrofolate pH 7.5, temperature not specified in the publication Ruegeria pomeroyi
2.1.1.269 0.29
-
 tetrahydrofolate pH 7.5, temperature not specified in the publication Candidatus Pelagibacter ubique
2.1.1.269 5.4
-
 dimethylsulfoniopropionate
-
 Ruegeria pomeroyi
2.1.1.269 5.4
-
 3-(S,S-dimethylsulfonio)propanoate pH 7.5, temperature not specified in the publication Ruegeria pomeroyi
2.1.1.269 8.6
-
 dimethylsulfoniopropionate in cell extracts, similar to that of purified recombinant DmdA Ruegeria pomeroyi
2.1.1.269 13.2
-
 2-(dimethylsulfonio)propanoate
-
 Candidatus Pelagibacter ubique
2.1.1.269 13.2
-
 3-(S,S-dimethylsulfonio)propanoate pH 7.5, temperature not specified in the publication Candidatus Pelagibacter ubique

Molecular Weight [Da]

EC Number Molecular Weight [Da] Molecular Weight Maximum [Da] Comment Organism
2.1.1.269 38500
-
 SDS-PAGE Candidatus Pelagibacter ubique
2.1.1.269 38500
-
 2 * 38500, SDS-PAGE Candidatus Pelagibacter ubique
2.1.1.269 38500
-
 2 * 38500, SDS-PAGE Ruegeria pomeroyi
2.1.1.269 68000
-
 PAGE Candidatus Pelagibacter ubique
2.1.1.269 68000
-
 PAGE Ruegeria pomeroyi

Organism

EC Number Organism UniProt Comment Textmining
2.1.1.269 Candidatus Pelagibacter ubique
-
 HTCC1062
-
2.1.1.269 Candidatus Pelagibacter ubique Q4FP21
-
-
2.1.1.269 Candidatus Pelagibacter ubique HTCC1062
-
 HTCC1062
-
2.1.1.269 Candidatus Pelagibacter ubique HTCC1062 Q4FP21
-
-
2.1.1.269 Ruegeria pomeroyi Q5LS57
-
-
2.1.1.269 Ruegeria pomeroyi Q5LS57 DSS-3
-

Purification (Commentary)

EC Number Purification (Comment) Organism
2.1.1.269 anion-exchange, hydrophobic interaction, and hydroxyapatite chromatographies Candidatus Pelagibacter ubique
2.1.1.269 anion-exchange, hydrophobic interaction, and hydroxyapatite chromatographies Ruegeria pomeroyi
2.1.1.269 recombinant protein Candidatus Pelagibacter ubique
2.1.1.269 recombinant protein Ruegeria pomeroyi

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.1.1.269 2-(dimethylsulfonio)propanoate + tetrahydrofolate enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate Candidatus Pelagibacter ubique 2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
 ?
2.1.1.269 2-(dimethylsulfonio)propanoate + tetrahydrofolate enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate Ruegeria pomeroyi 2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
 ?
2.1.1.269 2-(dimethylsulfonio)propanoate + tetrahydrofolate enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate Candidatus Pelagibacter ubique HTCC1062 2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
 ?
2.1.1.269 2-(dimethylsulfonio)propanoate + tetrahydrofolate
-
 Candidatus Pelagibacter ubique 2-(methylthio)propanoate + 5-methyltetrahydrofolate
-
 r
2.1.1.269 2-(dimethylsulfonio)propanoate + tetrahydrofolate
-
 Candidatus Pelagibacter ubique HTCC1062 2-(methylthio)propanoate + 5-methyltetrahydrofolate
-
 r
2.1.1.269 3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
 Candidatus Pelagibacter ubique 3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
 ?
2.1.1.269 3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
 Ruegeria pomeroyi 3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
 ?
2.1.1.269 3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
 Candidatus Pelagibacter ubique HTCC1062 3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
 ?
2.1.1.269 additional information no detectable demethylase activity with glycine betaine, dimethyl glycine, methylmercaptopropionate, methionine, or dimethylsulfonioacetate. Less than 1% activity is found with dimethylsulfoniobutanoate and dimethylsulfoniopentanoate Candidatus Pelagibacter ubique ?
-
 ?
2.1.1.269 additional information no detectable demethylase activity with glycine betaine, dimethyl glycine, methylmercaptopropionate, methionine, or dimethylsulfonioacetate. Less than 1% activity is found with dimethylsulfoniobutanoate and dimethylsulfoniopentanoate Ruegeria pomeroyi ?
-
 ?
2.1.1.269 additional information strict substrate specificity for dimethylsulfoniopropionate. No detectable demethylase activity with glycine betaine, dimethyl glycine, methylmercaptopropionate, methionine, or dimethylsulfonioacetate and less than 1% activity with dimethylsulfoniobutanoate and dimethylsulfoniopentanoate Ruegeria pomeroyi ?
-
 ?
2.1.1.269 additional information strict substrate specificity for dimethylsulfoniopropionate. No detectable demethylase activity with glycine betaine,dimethyl glycine, methylmercaptopropionate, methionine, or dimethylsulfonioacetate and less than 1% activity with dimethylsulfoniobutanoate and dimethylsulfoniopentanoate Candidatus Pelagibacter ubique ?
-
 ?
2.1.1.269 additional information no detectable demethylase activity with glycine betaine, dimethyl glycine, methylmercaptopropionate, methionine, or dimethylsulfonioacetate. Less than 1% activity is found with dimethylsulfoniobutanoate and dimethylsulfoniopentanoate Candidatus Pelagibacter ubique HTCC1062 ?
-
 ?
2.1.1.269 additional information strict substrate specificity for dimethylsulfoniopropionate. No detectable demethylase activity with glycine betaine,dimethyl glycine, methylmercaptopropionate, methionine, or dimethylsulfonioacetate and less than 1% activity with dimethylsulfoniobutanoate and dimethylsulfoniopentanoate Candidatus Pelagibacter ubique HTCC1062 ?
-
 ?

Subunits

EC Number Subunits Comment Organism
2.1.1.269 dimer 2 * 38500, SDS-PAGE Candidatus Pelagibacter ubique
2.1.1.269 dimer 2 * 38500, SDS-PAGE Ruegeria pomeroyi
2.1.1.269 dimer under nondenaturing conditions, MW is 68000 Da, suggesting that the enzyme is likely to be a dimer Candidatus Pelagibacter ubique

Synonyms

EC Number Synonyms Comment Organism
2.1.1.269 dimethylsulfoniopropionate demethylase
-
 Candidatus Pelagibacter ubique
2.1.1.269 dimethylsulfoniopropionate-dependent demethylase
-
 Candidatus Pelagibacter ubique
2.1.1.269 dimethylsulfoniopropionate-dependent demethylase
-
 Ruegeria pomeroyi
2.1.1.269 dimethylsulfoniumpropionate:tetrahydrofolate S-methyltransferase
-
 Candidatus Pelagibacter ubique
2.1.1.269 DmdA
-
 Candidatus Pelagibacter ubique
2.1.1.269 DmdA
-
 Ruegeria pomeroyi

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
2.1.1.269 2.4
-
 dimethylsulfoniopropionate
-
 Ruegeria pomeroyi
2.1.1.269 2.4
-
 3-(S,S-dimethylsulfonio)propanoate pH 7.5, temperature not specified in the publication Ruegeria pomeroyi
2.1.1.269 8.1
-
 2-(dimethylsulfonio)propanoate
-
 Candidatus Pelagibacter ubique
2.1.1.269 8.1
-
 3-(S,S-dimethylsulfonio)propanoate pH 7.5, temperature not specified in the publication Candidatus Pelagibacter ubique

pH Optimum

EC Number pH Optimum Minimum pH Optimum Maximum Comment Organism
2.1.1.269 7 8 maximum activity is observed at pH 7.0 to 8.0 Candidatus Pelagibacter ubique
2.1.1.269 7 8 maximum activity is observed at pH 7.0 to 8.0 Ruegeria pomeroyi
2.1.1.269 7 8 enzyme is more active in HEPES buffer than in MOPS or Tris-HCl buffer at the same pH Candidatus Pelagibacter ubique
2.1.1.269 7 8 enzyme is more active in HEPES than in MOPS buffer, but the activities in HEPES and Tris-HCl buffers are the same Ruegeria pomeroyi

pH Range

EC Number pH Minimum pH Maximum Comment Organism
2.1.1.269 6 8.8 more than 50% of maximum activity within Ruegeria pomeroyi
2.1.1.269 6 8.8 maximum activity is observed at pH 7.0 to 8.0, about 50% activity at pH 6.0 and 8.8 Ruegeria pomeroyi
2.1.1.269 6.5 8.3 more than 50% of maximum activity within Candidatus Pelagibacter ubique
2.1.1.269 6.5 8.3 maximum activity is observed at pH 7.0 to 8.0, about 50% activity at pH 6.5 and 8.3 Candidatus Pelagibacter ubique

Ki Value [mM]

EC Number Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
2.1.1.269 2.1
-
 methylmercaptopropionate noncompetitive inhibition, product inhibition Candidatus Pelagibacter ubique
2.1.1.269 2.1
-
 3-(methylthio)propanoate pH 7.5, temperature not specified in the publication Candidatus Pelagibacter ubique

kcat/KM [mM/s]

EC Number kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
2.1.1.269 0.45
-
 3-(S,S-dimethylsulfonio)propanoate pH 7.5, temperature not specified in the publication Ruegeria pomeroyi
2.1.1.269 0.618
-
 3-(S,S-dimethylsulfonio)propanoate pH 7.5, temperature not specified in the publication Candidatus Pelagibacter ubique