BRENDA - Enzyme Database show
show all sequences of 2.1.1.269

Dimethylsulfoniopropionate-dependent demethylase (DmdA) from Pelagibacter ubique and Silicibacter pomeroyi

Reisch, C.R.; Moran, M.A.; Whitman, W.B.; J. Bacteriol. 190, 8018-8024 (2008)

Data extracted from this reference:

Cloned(Commentary)
Commentary
Organism
-
Candidatus Pelagibacter ubique
-
Ruegeria pomeroyi
Inhibitors
Inhibitors
Commentary
Organism
Structure
3-(methylthio)propanoate
-
Candidatus Pelagibacter ubique
dimethylsulfoniobutanoate
substrate analog, weak inhibitor
Candidatus Pelagibacter ubique
dimethylsulfoniopentanoate
substrate analog, weak inhibitor
Candidatus Pelagibacter ubique
methylmercaptopropionate
product inhibition
Candidatus Pelagibacter ubique
MgCl2
100 mM, 20% inhibition
Candidatus Pelagibacter ubique
MgCl2
100 mM, 20% inhibition
Ruegeria pomeroyi
additional information
not inhibitory: 400 mM of (NH4)2SO4, K2HPO4, MgSO4, Na-acetate, NaCl, and KCl
Candidatus Pelagibacter ubique
additional information
not inhibitory: 400 mM of (NH4)2SO4, K2HPO4, MgSO4, Na-acetate, NaCl, and KCl
Ruegeria pomeroyi
KM Value [mM]
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.21
-
tetrahydrofolate
pH 7.5, temperature not specified in the publication
Ruegeria pomeroyi
0.29
-
tetrahydrofolate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
5.4
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Ruegeria pomeroyi
5.4
-
dimethylsulfoniopropionate
-
Ruegeria pomeroyi
8.6
-
dimethylsulfoniopropionate
in cell extracts, similar to that of purified recombinant DmdA
Ruegeria pomeroyi
13.2
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
13.2
-
dimethylsulfoniopropionate
-
Candidatus Pelagibacter ubique
Molecular Weight [Da]
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
38500
-
2 * 38500, SDS-PAGE; SDS-PAGE
Candidatus Pelagibacter ubique
38500
-
2 * 38500, SDS-PAGE
Ruegeria pomeroyi
68000
-
PAGE
Candidatus Pelagibacter ubique
68000
-
PAGE
Ruegeria pomeroyi
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Candidatus Pelagibacter ubique
-
HTCC1062
-
Candidatus Pelagibacter ubique
Q4FP21
-
-
Candidatus Pelagibacter ubique HTCC1062
-
HTCC1062
-
Candidatus Pelagibacter ubique HTCC1062
Q4FP21
-
-
Ruegeria pomeroyi
Q5LS57
; DSS-3
-
Purification (Commentary)
Commentary
Organism
anion-exchange, hydrophobic interaction, and hydroxyapatite chromatographies; recombinant protein
Candidatus Pelagibacter ubique
anion-exchange, hydrophobic interaction, and hydroxyapatite chromatographies; recombinant protein
Ruegeria pomeroyi
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
2-(dimethylsulfonio)propanoate + tetrahydrofolate
enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate
698600
Candidatus Pelagibacter ubique
2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
-
-
?
2-(dimethylsulfonio)propanoate + tetrahydrofolate
enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate
698600
Ruegeria pomeroyi
2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
-
-
?
2-(dimethylsulfonio)propanoate + tetrahydrofolate
enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate
698600
Candidatus Pelagibacter ubique HTCC1062
2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
-
-
?
3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
698600
Candidatus Pelagibacter ubique
3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
-
-
?
3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
698600
Ruegeria pomeroyi
3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
-
-
?
3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
698600
Candidatus Pelagibacter ubique HTCC1062
3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
-
-
?
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
698600
Candidatus Pelagibacter ubique
?
-
-
-
-
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
698600
Ruegeria pomeroyi
?
-
-
-
-
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
698600
Ruegeria pomeroyi
?
-
-
-
-
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
698600
Candidatus Pelagibacter ubique
?
-
-
-
-
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
698600
Candidatus Pelagibacter ubique HTCC1062
?
-
-
-
-
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
698600
Candidatus Pelagibacter ubique HTCC1062
?
-
-
-
-
Subunits
Subunits
Commentary
Organism
dimer
2 * 38500, SDS-PAGE; under nondenaturing conditions, MW is 68000 Da, suggesting that the enzyme is likely to be a dimer
Candidatus Pelagibacter ubique
dimer
2 * 38500, SDS-PAGE
Ruegeria pomeroyi
Turnover Number [1/s]
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
2.4
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Ruegeria pomeroyi
2.4
-
dimethylsulfoniopropionate
-
Ruegeria pomeroyi
8.1
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
8.1
-
dimethylsulfoniopropionate
-
Candidatus Pelagibacter ubique
pH Optimum
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
7
8
enzyme is more active in HEPES buffer than in MOPS or Tris-HCl buffer at the same pH; maximum activity is observed at pH 7.0 to 8.0
Candidatus Pelagibacter ubique
7
8
enzyme is more active in HEPES than in MOPS buffer, but the activities in HEPES and Tris-HCl buffers are the same; maximum activity is observed at pH 7.0 to 8.0
Ruegeria pomeroyi
pH Range
pH Minimum
pH Maximum
Commentary
Organism
6
8.8
maximum activity is observed at pH 7.0 to 8.0, about 50% activity at pH 6.0 and 8.8; more than 50% of maximum activity within
Ruegeria pomeroyi
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; more than 50% of maximum activity within
Candidatus Pelagibacter ubique
Ki Value [mM]
Ki Value [mM]
Ki Value maximum [mM]
Inhibitor
Commentary
Organism
Structure
2.1
-
3-(methylthio)propanoate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
2.1
-
methylmercaptopropionate
noncompetitive inhibition, product inhibition
Candidatus Pelagibacter ubique
Cloned(Commentary) (protein specific)
Commentary
Organism
-
Candidatus Pelagibacter ubique
-
Ruegeria pomeroyi
Inhibitors (protein specific)
Inhibitors
Commentary
Organism
Structure
3-(methylthio)propanoate
-
Candidatus Pelagibacter ubique
dimethylsulfoniobutanoate
substrate analog, weak inhibitor
Candidatus Pelagibacter ubique
dimethylsulfoniopentanoate
substrate analog, weak inhibitor
Candidatus Pelagibacter ubique
methylmercaptopropionate
product inhibition
Candidatus Pelagibacter ubique
MgCl2
100 mM, 20% inhibition
Candidatus Pelagibacter ubique
MgCl2
100 mM, 20% inhibition
Ruegeria pomeroyi
additional information
not inhibitory: 400 mM of (NH4)2SO4, K2HPO4, MgSO4, Na-acetate, NaCl, and KCl
Candidatus Pelagibacter ubique
additional information
not inhibitory: 400 mM of (NH4)2SO4, K2HPO4, MgSO4, Na-acetate, NaCl, and KCl
Ruegeria pomeroyi
Ki Value [mM] (protein specific)
Ki Value [mM]
Ki Value maximum [mM]
Inhibitor
Commentary
Organism
Structure
2.1
-
3-(methylthio)propanoate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
2.1
-
methylmercaptopropionate
noncompetitive inhibition, product inhibition
Candidatus Pelagibacter ubique
KM Value [mM] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.21
-
tetrahydrofolate
pH 7.5, temperature not specified in the publication
Ruegeria pomeroyi
0.29
-
tetrahydrofolate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
5.4
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Ruegeria pomeroyi
5.4
-
dimethylsulfoniopropionate
-
Ruegeria pomeroyi
8.6
-
dimethylsulfoniopropionate
in cell extracts, similar to that of purified recombinant DmdA
Ruegeria pomeroyi
13.2
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
13.2
-
dimethylsulfoniopropionate
-
Candidatus Pelagibacter ubique
Molecular Weight [Da] (protein specific)
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
38500
-
SDS-PAGE
Candidatus Pelagibacter ubique
38500
-
2 * 38500, SDS-PAGE
Candidatus Pelagibacter ubique
38500
-
2 * 38500, SDS-PAGE
Ruegeria pomeroyi
68000
-
PAGE
Candidatus Pelagibacter ubique
68000
-
PAGE
Ruegeria pomeroyi
Purification (Commentary) (protein specific)
Commentary
Organism
anion-exchange, hydrophobic interaction, and hydroxyapatite chromatographies
Candidatus Pelagibacter ubique
anion-exchange, hydrophobic interaction, and hydroxyapatite chromatographies; recombinant protein
Ruegeria pomeroyi
recombinant protein
Candidatus Pelagibacter ubique
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
2-(dimethylsulfonio)propanoate + tetrahydrofolate
enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate
698600
Candidatus Pelagibacter ubique
2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
-
-
?
2-(dimethylsulfonio)propanoate + tetrahydrofolate
enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate
698600
Ruegeria pomeroyi
2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
-
-
?
2-(dimethylsulfonio)propanoate + tetrahydrofolate
enzyme exhibits strict substrate specificity for 2-(dimethylsulfonio)propanoate
698600
Candidatus Pelagibacter ubique HTCC1062
2-(methylsulfanyl)propanoate + 5-methyltetrahydrofolate
-
-
-
?
3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
698600
Candidatus Pelagibacter ubique
3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
-
-
?
3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
698600
Ruegeria pomeroyi
3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
-
-
?
3-(S,S-dimethylsulfonio)propanoate + tetrahydrofolate
-
698600
Candidatus Pelagibacter ubique HTCC1062
3-(methylthio)propanoate + 5-methyltetrahydrofolate
-
-
-
?
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
698600
Candidatus Pelagibacter ubique
?
-
-
-
-
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
698600
Ruegeria pomeroyi
?
-
-
-
-
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
698600
Ruegeria pomeroyi
?
-
-
-
-
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
698600
Candidatus Pelagibacter ubique
?
-
-
-
-
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
698600
Candidatus Pelagibacter ubique HTCC1062
?
-
-
-
-
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
698600
Candidatus Pelagibacter ubique HTCC1062
?
-
-
-
-
Subunits (protein specific)
Subunits
Commentary
Organism
dimer
under nondenaturing conditions, MW is 68000 Da, suggesting that the enzyme is likely to be a dimer
Candidatus Pelagibacter ubique
dimer
2 * 38500, SDS-PAGE
Candidatus Pelagibacter ubique
dimer
2 * 38500, SDS-PAGE
Ruegeria pomeroyi
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
2.4
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Ruegeria pomeroyi
2.4
-
dimethylsulfoniopropionate
-
Ruegeria pomeroyi
8.1
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
8.1
-
dimethylsulfoniopropionate
-
Candidatus Pelagibacter ubique
pH Optimum (protein specific)
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
7
8
maximum activity is observed at pH 7.0 to 8.0
Candidatus Pelagibacter ubique
7
8
enzyme is more active in HEPES buffer than in MOPS or Tris-HCl buffer at the same pH
Candidatus Pelagibacter ubique
7
8
enzyme is more active in HEPES than in MOPS buffer, but the activities in HEPES and Tris-HCl buffers are the same; maximum activity is observed at pH 7.0 to 8.0
Ruegeria pomeroyi
pH Range (protein specific)
pH Minimum
pH Maximum
Commentary
Organism
6
8.8
maximum activity is observed at pH 7.0 to 8.0, about 50% activity at pH 6.0 and 8.8; more than 50% of maximum activity within
Ruegeria pomeroyi
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
6.5
8.3
more than 50% of maximum activity within
Candidatus Pelagibacter ubique
KCat/KM [mM/s]
kcat/KM Value [1/mMs-1]
kcat/KM Value Maximum [1/mMs-1]
Substrate
Commentary
Organism
Structure
0.45
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Ruegeria pomeroyi
0.618
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
KCat/KM [mM/s] (protein specific)
KCat/KM Value [1/mMs-1]
KCat/KM Value Maximum [1/mMs-1]
Substrate
Commentary
Organism
Structure
0.45
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Ruegeria pomeroyi
0.618
-
3-(S,S-dimethylsulfonio)propanoate
pH 7.5, temperature not specified in the publication
Candidatus Pelagibacter ubique
Other publictions for EC 2.1.1.269
No.
1st author
Pub Med
title
organims
journal
volume
pages
year
Activating Compound
Application
Cloned(Commentary)
Crystallization (Commentary)
Engineering
General Stability
Inhibitors
KM Value [mM]
Localization
Metals/Ions
Molecular Weight [Da]
Natural Substrates/ Products (Substrates)
Organic Solvent Stability
Organism
Oxidation Stability
Posttranslational Modification
Purification (Commentary)
Reaction
Renatured (Commentary)
Source Tissue
Specific Activity [micromol/min/mg]
Storage Stability
Substrates and Products (Substrate)
Subunits
Temperature Optimum [C]
Temperature Range [C]
Temperature Stability [C]
Turnover Number [1/s]
pH Optimum
pH Range
pH Stability
Cofactor
Ki Value [mM]
pI Value
IC50 Value
Activating Compound (protein specific)
Application (protein specific)
Cloned(Commentary) (protein specific)
Cofactor (protein specific)
Crystallization (Commentary) (protein specific)
Engineering (protein specific)
General Stability (protein specific)
IC50 Value (protein specific)
Inhibitors (protein specific)
Ki Value [mM] (protein specific)
KM Value [mM] (protein specific)
Localization (protein specific)
Metals/Ions (protein specific)
Molecular Weight [Da] (protein specific)
Natural Substrates/ Products (Substrates) (protein specific)
Organic Solvent Stability (protein specific)
Oxidation Stability (protein specific)
Posttranslational Modification (protein specific)
Purification (Commentary) (protein specific)
Renatured (Commentary) (protein specific)
Source Tissue (protein specific)
Specific Activity [micromol/min/mg] (protein specific)
Storage Stability (protein specific)
Substrates and Products (Substrate) (protein specific)
Subunits (protein specific)
Temperature Optimum [C] (protein specific)
Temperature Range [C] (protein specific)
Temperature Stability [C] (protein specific)
Turnover Number [1/s] (protein specific)
pH Optimum (protein specific)
pH Range (protein specific)
pH Stability (protein specific)
pI Value (protein specific)
Expression
General Information
General Information (protein specific)
Expression (protein specific)
KCat/KM [mM/s]
KCat/KM [mM/s] (protein specific)
735504
Cui
Abundance and distribution of ...
Candidatus Pelagibacter ubique, Candidatus Pelagibacter ubique HTCC7211, Candidatus Puniceispirillum marinum, Candidatus Puniceispirillum marinum IMCC1322, Roseobacter sp.
Appl. Environ. Microbiol.
81
4184-4194
2015
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-
3
-
-
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-
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9
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-
-
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3
-
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-
-
-
-
-
-
-
-
-
-
-
6
6
-
-
-
736286
Varaljay
Single-taxon field measurement ...
Roseobacter sp., Roseobacter sp. HTCC 2255, Ruegeria pomeroyi
ISME J.
9
1677-1686
2015
-
-
2
-
-
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-
-
-
-
-
-
-
3
-
-
-
-
-
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2
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-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
4
4
-
-
-
720998
Schuller
Structures of dimethylsulfonio ...
Candidatus Pelagibacter ubique, Candidatus Pelagibacter ubique HTCC1062
Protein Sci.
21
289-298
2012
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-
1
1
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-
-
-
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-
1
-
6
-
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1
1
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2
1
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1
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1
1
2
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1
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-
1
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-
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-
2
1
-
-
-
-
-
-
-
-
-
1
1
-
-
-
718639
Howard
Changes in dimethylsulfoniopro ...
Candidatus Pelagibacter ubique, Candidatus Pelagibacter ubique HTCC7211, Candidatus Puniceispirillum marinum, Flavobacteriaceae, Rhodobacterales, Rhodospirillales, Roseobacter sp., Sphingomonadales, unidentified marine bacterioplankton, unidentified marine bacterioplankton HTCC2080
Appl. Environ. Microbiol.
77
524-531
2011
-
-
4
-
-
-
-
-
-
-
-
-
-
15
-
-
-
-
-
-
-
-
-
-
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-
-
-
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-
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4
-
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-
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-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
8
8
-
-
-
698600
Reisch
Dimethylsulfoniopropionate-dep ...
Candidatus Pelagibacter ubique, Candidatus Pelagibacter ubique HTCC1062, Ruegeria pomeroyi
J. Bacteriol.
190
8018-8024
2008
-
-
2
-
-
-
8
7
-
-
4
-
-
12
-
-
2
-
-
-
-
-
12
2
-
-
-
4
2
2
-
-
2
-
-
-
-
2
-
-
-
-
-
8
2
7
-
-
5
-
-
-
-
3
-
-
-
-
12
3
-
-
-
4
3
3
-
-
-
-
-
-
2
2
701221
Howard
Bacterial taxa that limit sulf ...
Candidatus Pelagibacter ubique, Ruegeria pomeroyi DSS-3
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314
649-652
2006
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721447
Jansen
Tetrahydrofolate serves as a m ...
uncultured bacterium, uncultured bacterium WN
Arch. Microbiol.
169
84-87
1998
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