BRENDA - Enzyme Database
show all sequences of 6.2.1.44

Regulatory and functional diversity of methylmercaptopropionate coenzyme A ligases from the dimethylsulfoniopropionate demethylation pathway in Ruegeria pomeroyi DSS-3 and other proteobacteria

Bullock, H.A.; Reisch, C.R.; Burns, A.S.; Moran, M.A.; Whitman, W.B.; J. Bacteriol. 196, 1275-1285 (2014)

Data extracted from this reference:

Cloned(Commentary)
Commentary
Organism
expression in Escherichia coli
Burkholderia thailandensis
expression in Escherichia coli
Candidatus Pelagibacter ubique
expression in Escherichia coli
Pseudomonas aeruginosa
expression in Escherichia coli; expression in Escherichia coli
Ruegeria lacuscaerulensis
expression in Escherichia coli; expression in Escherichia coli
Ruegeria pomeroyi
Inhibitors
Inhibitors
Commentary
Organism
Structure
(NH4)2SO4
0.4 M, 93% inhibition
Burkholderia thailandensis
(NH4)2SO4
0.4 M, 14% inhibition
Candidatus Pelagibacter ubique
(NH4)2SO4
0.4 M, 29% inhibition; 0.4 M, 43% inhibition
Ruegeria lacuscaerulensis
(NH4)2SO4
0.4 M, 75% inhibition
Ruegeria pomeroyi
dimethylsulfoniopropionate
inhibited by physiological concentrations (70 mM). ADP reverses the inhibition of RPO_DmdB1, suggesting that this enzyme was responsive to cellular energy charge; inhibited by physiological concentrations (70 mM). ADP reverses the inhibition of RPO_DmdB1, suggesting that this enzyme was responsive to cellular energy charge. 3-(Methylthio)propanoate reverses the inhibition of RPO_DmdB2, suggesting that a complex regulatory system exists
Ruegeria pomeroyi
K2SO4
0.4 M, 16% inhibition
Candidatus Pelagibacter ubique
K2SO4
0.4 M, 5% inhibition; 0.4 M, 90% inhibition
Ruegeria lacuscaerulensis
K2SO4
0.4 M, 68% inhibition
Ruegeria pomeroyi
KCl
0.4 M, 73% inhibition
Burkholderia thailandensis
KCl
0.4 M, 8% inhibition
Candidatus Pelagibacter ubique
KCl
0.4 M, 55% inhibition; 0.4 M, 70% inhibition
Ruegeria pomeroyi
Li2SO4
0.4 M, 92% inhibition
Burkholderia thailandensis
Li2SO4
0.4 M, 92% inhibition
Candidatus Pelagibacter ubique
Li2SO4
0.4 M, 41% inhibition; 0.4 M, 57% inhibition
Ruegeria lacuscaerulensis
Li2SO4
0.4 M, 82% inhibition; 0.4 M, 82% inhibition
Ruegeria pomeroyi
LiCl
0.4 M, 87% inhibition
Burkholderia thailandensis
LiCl
0.4 M, 91% inhibition
Candidatus Pelagibacter ubique
LiCl
0.4 M, 59% inhibition
Ruegeria pomeroyi
additional information
no inhibition by dimethylsulfoniopropionate
Burkholderia thailandensis
additional information
no inhibition by dimethylsulfoniopropionate
Pseudomonas aeruginosa
additional information
no inhibition by dimethylsulfoniopropionate; no inhibition by dimethylsulfoniopropionate
Ruegeria lacuscaerulensis
Na2SO4
0.4 M, 84% inhibition
Burkholderia thailandensis
Na2SO4
0.4 M, 60% inhibition
Candidatus Pelagibacter ubique
Na2SO4
0.4 M, 58% inhibition; 0.4 M, 66% inhibition
Ruegeria lacuscaerulensis
Na2SO4
0.4 M, 68% inhibition
Ruegeria pomeroyi
NaCl
0.4 M, 92% inhibition
Burkholderia thailandensis
NaCl
0.4 M, 57% inhibition
Candidatus Pelagibacter ubique
NaCl
0.4 M,10% inhibition; 0.4 M, 14% inhibition
Ruegeria lacuscaerulensis
NaCl
0.4 M, 50% inhibition; 0.4 M, 60% inhibition
Ruegeria pomeroyi
NH4Cl
0.4 M, 55% inhibition
Burkholderia thailandensis
NH4Cl
0.4 M, 32% inhibition
Candidatus Pelagibacter ubique
NH4Cl
0.4 M, 50% inhibition
Ruegeria lacuscaerulensis
NH4Cl
0.4 M, 94% inhibition
Ruegeria pomeroyi
potassium acetate
0.4 M, 7% inhibition
Burkholderia thailandensis
potassium acetate
0.4 M, 16% inhibition
Candidatus Pelagibacter ubique
potassium acetate
0.4 M, 56% inhibition
Ruegeria lacuscaerulensis
potassium acetate
0.4 M, 51% inhibition; 0.4 M, 73% inhibition
Ruegeria pomeroyi
Sodium acetate
0.4 M, 45% inhibition
Burkholderia thailandensis
Sodium acetate
0.4 M, 61% inhibition
Candidatus Pelagibacter ubique
Sodium acetate
0.4 M, 68% inhibition; 0.4 M, 88% inhibition
Ruegeria lacuscaerulensis
Sodium acetate
0.4 M, 66% inhibition; 0.4 M, 86% inhibition
Ruegeria pomeroyi
KM Value [mM]
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.01
-
Butyrate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
0.02
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
0.04
-
3-(methylthio)propanoate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
0.04
-
propionate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
0.04
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
0.07
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
0.08
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
0.1
2
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
0.44
-
Acrylate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
0.9
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
3.11
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
5.25
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
Metals/Ions
Metals/Ions
Commentary
Organism
Structure
(NH4)2SO4
0.4 M, 1.5fold enhancement of activity
Ruegeria pomeroyi
K2SO4
0.4 M, 1.3fold enhancement of activity
Burkholderia thailandensis
K2SO4
0.4 M, 1.6fold enhancement of activity
Ruegeria pomeroyi
KCl
0.4 M, 1.4fold enhancement of activity
Ruegeria lacuscaerulensis
LiCl
0.4 M, 1.4fold enhancement of activity; 0.4 M, 1.4fold enhancement of activity
Ruegeria lacuscaerulensis
LiCl
0.4 M, 3fold enhancement of activity
Ruegeria pomeroyi
Mg2+
required for activity
Burkholderia thailandensis
Mg2+
required for activity
Candidatus Pelagibacter ubique
Mg2+
required for activity
Pseudomonas aeruginosa
Mg2+
required for activity; required for activity
Ruegeria lacuscaerulensis
Mg2+
required for activity; required for activity
Ruegeria pomeroyi
Na2SO4
0.4 M, 1.2fold enhancement of activity
Ruegeria pomeroyi
NH4Cl
0.4 M, 1.6fold enhancement of activity
Ruegeria lacuscaerulensis
NH4Cl
0.4 M, 2.1fold enhancement of activity
Ruegeria pomeroyi
Molecular Weight [Da]
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
58000
-
2 * 58000, SDS-PAGE
Ruegeria pomeroyi
59000
-
2 * 59000, SDS-PAGE
Candidatus Pelagibacter ubique
59066
-
2 * 59066, calculated from sequence
Ruegeria pomeroyi
59143
-
x * 59143, calculated from sequence
Ruegeria lacuscaerulensis
59166
-
2 * 59166, calculated from sequence
Ruegeria pomeroyi
59400
-
x * 59400, calculated from sequence
Ruegeria lacuscaerulensis
59548
-
x * 59548, calculated from sequence
Pseudomonas aeruginosa
61340
-
2 * 61340, calculated from sequence
Candidatus Pelagibacter ubique
62000
-
2 * 62000, SDS-PAGE
Ruegeria pomeroyi
64781
-
x * 64781, calculated from sequence
Burkholderia thailandensis
108000
-
gel filtration
Candidatus Pelagibacter ubique
112000
-
gel filtration
Ruegeria pomeroyi
122000
-
gel filtration
Ruegeria pomeroyi
Natural Substrates/ Products (Substrates)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
ATP + 3-(methylthio)propanoate + CoA
Candidatus Pelagibacter ubique
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
?
ATP + 3-(methylthio)propanoate + CoA
Ruegeria pomeroyi
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
?
ATP + 3-(methylthio)propanoate + CoA
Ruegeria pomeroyi
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
AMP + diphosphate + 3-methylmercaptopropionyl-CoA
-
-
?
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Burkholderia thailandensis
Q2SWN7
-
-
Burkholderia thailandensis ATCC 700388
Q2SWN7
-
-
Candidatus Pelagibacter ubique
Q4FP19
-
-
Candidatus Pelagibacter ubique HTCC1062
Q4FP19
-
-
Pseudomonas aeruginosa
Q9HWI3
-
-
Pseudomonas aeruginosa ATCC 15692
Q9HWI3
-
-
Ruegeria lacuscaerulensis
D0CPY8
-
-
Ruegeria lacuscaerulensis
D0CV95
-
-
Ruegeria lacuscaerulensis ITI-1157
D0CPY8
-
-
Ruegeria lacuscaerulensis ITI-1157
D0CV95
-
-
Ruegeria pomeroyi
Q5LRT0
-
-
Ruegeria pomeroyi
Q5LVM3
-
-
Purification (Commentary)
Commentary
Organism
-
Burkholderia thailandensis
-
Candidatus Pelagibacter ubique
-
Pseudomonas aeruginosa
;
Ruegeria lacuscaerulensis
;
Ruegeria pomeroyi
Specific Activity [micromol/min/mg]
Specific Activity Minimum [µmol/min/mg]
Specific Activity Maximum [µmol/min/mg]
Commentary
Organism
15
-
pH 7.5, 22°C
Ruegeria pomeroyi
16
-
pH 7.5, 22°C
Ruegeria pomeroyi
28
-
pH 7.5, 22°C
Candidatus Pelagibacter ubique
Storage Stability
Storage Stability
Organism
-20°C, stable in 100 mM HEPES for up to 6 months
Candidatus Pelagibacter ubique
-20°C, stable in a solution of 100 mM KHPO4 for up to 2 months
Ruegeria pomeroyi
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
ATP + 3-(methylthio)propanoate + CoA
-
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
-
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
-
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
-
727780
Pseudomonas aeruginosa
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
-
727780
Burkholderia thailandensis
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-methylmercaptopropionyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 14% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 15% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 18% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 19% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 4% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 5% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 8% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 110% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 151% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 110% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa ATCC 15692
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique HTCC1062
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 151% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 15% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 29% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 50% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 56% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 6% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 65% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 78% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 65% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa ATCC 15692
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 50% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique HTCC1062
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 15% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis ATCC 700388
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 29% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 6% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 113% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 121% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 160% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 36% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 73% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 81% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 93% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 121% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa ATCC 15692
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 160% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique HTCC1062
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 93% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis ATCC 700388
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 113% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 81% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 109% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 2% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 32% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 41% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 63% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 63% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 87% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 12% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 17% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 17% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 27% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 5% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 62% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 94% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 12% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 13% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 30% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 48% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 5% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 7% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 18% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 20% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 23% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 24% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 39% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 8% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 179% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 18% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 31% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 49% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 51% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 68% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 91% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 68% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis ATCC 700388
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 179% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 124% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 126% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 13% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 16% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 45% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 72% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 77% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 124% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa ATCC 15692
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 13% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique HTCC1062
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 45% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis ATCC 700388
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 72% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 126% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + propionyl-CoA
-
-
-
?
additional information
no activity with acetate, caprylate and caprate
727780
Ruegeria pomeroyi
?
-
-
-
-
additional information
no activity with acetate, caprylate and caprate
727780
Ruegeria lacuscaerulensis
?
-
-
-
-
additional information
no activity with acetate, caprylate and caprate
727780
Burkholderia thailandensis
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Ruegeria pomeroyi
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Candidatus Pelagibacter ubique
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Ruegeria lacuscaerulensis
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Pseudomonas aeruginosa
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Pseudomonas aeruginosa ATCC 15692
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Candidatus Pelagibacter ubique HTCC1062
?
-
-
-
-
additional information
no activity with acetate, caprylate and caprate
727780
Burkholderia thailandensis ATCC 700388
?
-
-
-
-
additional information
no activity with acetate, caprylate and caprate
727780
Ruegeria lacuscaerulensis ITI-1157
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Ruegeria lacuscaerulensis ITI-1157
?
-
-
-
-
Subunits
Subunits
Commentary
Organism
?
x * 64781, calculated from sequence
Burkholderia thailandensis
?
x * 59548, calculated from sequence
Pseudomonas aeruginosa
?
x * 59143, calculated from sequence; x * 59400, calculated from sequence
Ruegeria lacuscaerulensis
dimer
2 * 59000, SDS-PAGE; 2 * 61340, calculated from sequence
Candidatus Pelagibacter ubique
dimer
2 * 58000, SDS-PAGE; 2 * 59066, calculated from sequence; 2 * 59166, calculated from sequence; 2 * 62000, SDS-PAGE
Ruegeria pomeroyi
Temperature Optimum [°C]
Temperature Optimum [°C]
Temperature Optimum Maximum [°C]
Commentary
Organism
22
-
assay at room temperature
Candidatus Pelagibacter ubique
22
-
assay at room temperature; assay at room temperature
Ruegeria pomeroyi
Temperature Range [°C]
Temperature Minimum [°C]
Temperature Maximum [°C]
Commentary
Organism
10
30
activity at 10°C and at 30°C is nearly the same as at room temperature
Candidatus Pelagibacter ubique
10
30
activity at 10°C and at 30°C is nearly the same as at room temperature; activity at 10°C and at 30°C is nearly the same as at room temperature
Ruegeria pomeroyi
Turnover Number [1/s]
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
1
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
3.7
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
7.2
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
10.8
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
14.3
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
14.4
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
14.9
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
17.7
-
propionate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
18.7
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
22.3
-
Acrylate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
29.4
-
3-(methylthio)propanoate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
43.8
-
Butyrate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
pH Optimum
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
7
-
-
Ruegeria pomeroyi
7.5
-
-
Candidatus Pelagibacter ubique
7.5
-
-
Ruegeria pomeroyi
Cloned(Commentary) (protein specific)
Commentary
Organism
expression in Escherichia coli
Burkholderia thailandensis
expression in Escherichia coli
Candidatus Pelagibacter ubique
expression in Escherichia coli
Pseudomonas aeruginosa
expression in Escherichia coli
Ruegeria lacuscaerulensis
expression in Escherichia coli
Ruegeria pomeroyi
Inhibitors (protein specific)
Inhibitors
Commentary
Organism
Structure
(NH4)2SO4
0.4 M, 93% inhibition
Burkholderia thailandensis
(NH4)2SO4
0.4 M, 14% inhibition
Candidatus Pelagibacter ubique
(NH4)2SO4
0.4 M, 43% inhibition
Ruegeria lacuscaerulensis
(NH4)2SO4
0.4 M, 29% inhibition
Ruegeria lacuscaerulensis
(NH4)2SO4
0.4 M, 75% inhibition
Ruegeria pomeroyi
dimethylsulfoniopropionate
inhibited by physiological concentrations (70 mM). ADP reverses the inhibition of RPO_DmdB1, suggesting that this enzyme was responsive to cellular energy charge. 3-(Methylthio)propanoate reverses the inhibition of RPO_DmdB2, suggesting that a complex regulatory system exists
Ruegeria pomeroyi
dimethylsulfoniopropionate
inhibited by physiological concentrations (70 mM). ADP reverses the inhibition of RPO_DmdB1, suggesting that this enzyme was responsive to cellular energy charge
Ruegeria pomeroyi
K2SO4
0.4 M, 16% inhibition
Candidatus Pelagibacter ubique
K2SO4
0.4 M, 5% inhibition
Ruegeria lacuscaerulensis
K2SO4
0.4 M, 90% inhibition
Ruegeria lacuscaerulensis
K2SO4
0.4 M, 68% inhibition
Ruegeria pomeroyi
KCl
0.4 M, 73% inhibition
Burkholderia thailandensis
KCl
0.4 M, 8% inhibition
Candidatus Pelagibacter ubique
KCl
0.4 M, 55% inhibition
Ruegeria pomeroyi
KCl
0.4 M, 70% inhibition
Ruegeria pomeroyi
Li2SO4
0.4 M, 92% inhibition
Burkholderia thailandensis
Li2SO4
0.4 M, 92% inhibition
Candidatus Pelagibacter ubique
Li2SO4
0.4 M, 57% inhibition
Ruegeria lacuscaerulensis
Li2SO4
0.4 M, 41% inhibition
Ruegeria lacuscaerulensis
Li2SO4
0.4 M, 82% inhibition
Ruegeria pomeroyi
LiCl
0.4 M, 87% inhibition
Burkholderia thailandensis
LiCl
0.4 M, 91% inhibition
Candidatus Pelagibacter ubique
LiCl
0.4 M, 59% inhibition
Ruegeria pomeroyi
additional information
no inhibition by dimethylsulfoniopropionate
Burkholderia thailandensis
additional information
no inhibition by dimethylsulfoniopropionate
Pseudomonas aeruginosa
additional information
no inhibition by dimethylsulfoniopropionate
Ruegeria lacuscaerulensis
Na2SO4
0.4 M, 84% inhibition
Burkholderia thailandensis
Na2SO4
0.4 M, 60% inhibition
Candidatus Pelagibacter ubique
Na2SO4
0.4 M, 58% inhibition
Ruegeria lacuscaerulensis
Na2SO4
0.4 M, 66% inhibition
Ruegeria lacuscaerulensis
Na2SO4
0.4 M, 68% inhibition
Ruegeria pomeroyi
NaCl
0.4 M, 92% inhibition
Burkholderia thailandensis
NaCl
0.4 M, 57% inhibition
Candidatus Pelagibacter ubique
NaCl
0.4 M, 14% inhibition
Ruegeria lacuscaerulensis
NaCl
0.4 M,10% inhibition
Ruegeria lacuscaerulensis
NaCl
0.4 M, 50% inhibition
Ruegeria pomeroyi
NaCl
0.4 M, 60% inhibition
Ruegeria pomeroyi
NH4Cl
0.4 M, 55% inhibition
Burkholderia thailandensis
NH4Cl
0.4 M, 32% inhibition
Candidatus Pelagibacter ubique
NH4Cl
0.4 M, 50% inhibition
Ruegeria lacuscaerulensis
NH4Cl
0.4 M, 94% inhibition
Ruegeria pomeroyi
potassium acetate
0.4 M, 7% inhibition
Burkholderia thailandensis
potassium acetate
0.4 M, 16% inhibition
Candidatus Pelagibacter ubique
potassium acetate
0.4 M, 56% inhibition
Ruegeria lacuscaerulensis
potassium acetate
0.4 M, 51% inhibition
Ruegeria pomeroyi
potassium acetate
0.4 M, 73% inhibition
Ruegeria pomeroyi
Sodium acetate
0.4 M, 45% inhibition
Burkholderia thailandensis
Sodium acetate
0.4 M, 61% inhibition
Candidatus Pelagibacter ubique
Sodium acetate
0.4 M, 68% inhibition
Ruegeria lacuscaerulensis
Sodium acetate
0.4 M, 88% inhibition
Ruegeria lacuscaerulensis
Sodium acetate
0.4 M, 66% inhibition
Ruegeria pomeroyi
Sodium acetate
0.4 M, 86% inhibition
Ruegeria pomeroyi
KM Value [mM] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.01
-
Butyrate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
0.02
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
0.04
-
3-(methylthio)propanoate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
0.04
-
propionate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
0.04
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
0.07
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
0.08
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
0.1
2
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
0.44
-
Acrylate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
0.9
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
3.11
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
5.25
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
Metals/Ions (protein specific)
Metals/Ions
Commentary
Organism
Structure
(NH4)2SO4
0.4 M, 1.5fold enhancement of activity
Ruegeria pomeroyi
K2SO4
0.4 M, 1.3fold enhancement of activity
Burkholderia thailandensis
K2SO4
0.4 M, 1.6fold enhancement of activity
Ruegeria pomeroyi
KCl
0.4 M, 1.4fold enhancement of activity
Ruegeria lacuscaerulensis
LiCl
0.4 M, 1.4fold enhancement of activity
Ruegeria lacuscaerulensis
LiCl
0.4 M, 3fold enhancement of activity
Ruegeria pomeroyi
Mg2+
required for activity
Burkholderia thailandensis
Mg2+
required for activity
Candidatus Pelagibacter ubique
Mg2+
required for activity
Pseudomonas aeruginosa
Mg2+
required for activity
Ruegeria lacuscaerulensis
Mg2+
required for activity
Ruegeria pomeroyi
Na2SO4
0.4 M, 1.2fold enhancement of activity
Ruegeria pomeroyi
NH4Cl
0.4 M, 1.6fold enhancement of activity
Ruegeria lacuscaerulensis
NH4Cl
0.4 M, 2.1fold enhancement of activity
Ruegeria pomeroyi
Molecular Weight [Da] (protein specific)
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
58000
-
2 * 58000, SDS-PAGE
Ruegeria pomeroyi
59000
-
2 * 59000, SDS-PAGE
Candidatus Pelagibacter ubique
59066
-
2 * 59066, calculated from sequence
Ruegeria pomeroyi
59143
-
x * 59143, calculated from sequence
Ruegeria lacuscaerulensis
59166
-
2 * 59166, calculated from sequence
Ruegeria pomeroyi
59400
-
x * 59400, calculated from sequence
Ruegeria lacuscaerulensis
59548
-
x * 59548, calculated from sequence
Pseudomonas aeruginosa
61340
-
2 * 61340, calculated from sequence
Candidatus Pelagibacter ubique
62000
-
2 * 62000, SDS-PAGE
Ruegeria pomeroyi
64781
-
x * 64781, calculated from sequence
Burkholderia thailandensis
108000
-
gel filtration
Candidatus Pelagibacter ubique
112000
-
gel filtration
Ruegeria pomeroyi
122000
-
gel filtration
Ruegeria pomeroyi
Natural Substrates/ Products (Substrates) (protein specific)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
ATP + 3-(methylthio)propanoate + CoA
Candidatus Pelagibacter ubique
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
?
ATP + 3-(methylthio)propanoate + CoA
Ruegeria pomeroyi
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
?
ATP + 3-(methylthio)propanoate + CoA
Ruegeria pomeroyi
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
AMP + diphosphate + 3-methylmercaptopropionyl-CoA
-
-
?
Purification (Commentary) (protein specific)
Commentary
Organism
-
Burkholderia thailandensis
-
Candidatus Pelagibacter ubique
-
Pseudomonas aeruginosa
-
Ruegeria lacuscaerulensis
-
Ruegeria pomeroyi
Specific Activity [micromol/min/mg] (protein specific)
Specific Activity Minimum [µmol/min/mg]
Specific Activity Maximum [µmol/min/mg]
Commentary
Organism
15
-
pH 7.5, 22°C
Ruegeria pomeroyi
16
-
pH 7.5, 22°C
Ruegeria pomeroyi
28
-
pH 7.5, 22°C
Candidatus Pelagibacter ubique
Storage Stability (protein specific)
Storage Stability
Organism
-20°C, stable in 100 mM HEPES for up to 6 months
Candidatus Pelagibacter ubique
-20°C, stable in a solution of 100 mM KHPO4 for up to 2 months
Ruegeria pomeroyi
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
ATP + 3-(methylthio)propanoate + CoA
-
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
-
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
-
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
-
727780
Pseudomonas aeruginosa
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
-
727780
Burkholderia thailandensis
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-(methylthio)propionyl-CoA
-
-
-
?
ATP + 3-(methylthio)propanoate + CoA
once released from phytoplankton, marine bacteria degrade dimethylsulfoniopropionate by either the cleavage pathway to form the volatile gas dimethylsulfide or the demethylation pathway, yielding methanethiol, which is readily assimilated or oxidized. The enzyme DmdB, a methylmercaptopropionate-coenzyme A ligase, catalyzes the second step in the demethylation pathway and is a major regulatory point. Two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-methylmercaptopropionyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 14% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 15% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 18% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 19% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 4% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 5% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + 3-methylbutanoate + CoA
activity is 8% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + 3-methylbutanoyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 110% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 151% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 110% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa ATCC 15692
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique HTCC1062
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acetate + CoA
activity is 151% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + acetyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 15% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 29% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 50% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 56% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 6% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 65% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 78% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 65% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa ATCC 15692
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 50% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique HTCC1062
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 15% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis ATCC 700388
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 29% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + acrylate + CoA
activity is 6% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + acryloyl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 113% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 121% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 160% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 36% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 73% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 81% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 93% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 121% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa ATCC 15692
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 160% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique HTCC1062
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 93% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis ATCC 700388
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 113% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + butyrate + CoA
activity is 81% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + butyryl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 109% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 2% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 32% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 41% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 63% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 63% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + crotonate + CoA
activity is 87% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + crotonyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 12% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 17% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 17% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 27% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 5% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 62% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + hexanoate + CoA
activity is 94% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + hexanoyl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 12% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 13% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 30% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 48% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 5% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + isobutyrate + CoA
activity is 7% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + isobutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 10% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 18% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 20% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 23% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 24% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 39% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + methylbutyrate + CoA
activity is 8% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + methylbutyryl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 179% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 18% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 31% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 49% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 51% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 68% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 91% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 68% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis ATCC 700388
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + pentanoate + CoA
activity is 179% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + pentanoyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 124% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 126% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 13% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 16% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 45% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 72% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 77% of the activity with 3-(methylthio)propanoate
727780
Ruegeria pomeroyi
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 124% of the activity with 3-(methylthio)propanoate
727780
Pseudomonas aeruginosa ATCC 15692
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 13% of the activity with 3-(methylthio)propanoate
727780
Candidatus Pelagibacter ubique HTCC1062
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 45% of the activity with 3-(methylthio)propanoate
727780
Burkholderia thailandensis ATCC 700388
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 72% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + propionyl-CoA
-
-
-
?
ATP + propionate + CoA
activity is 126% of the activity with 3-(methylthio)propanoate
727780
Ruegeria lacuscaerulensis ITI-1157
AMP + diphosphate + propionyl-CoA
-
-
-
?
additional information
no activity with acetate, caprylate and caprate
727780
Ruegeria pomeroyi
?
-
-
-
-
additional information
no activity with acetate, caprylate and caprate
727780
Ruegeria lacuscaerulensis
?
-
-
-
-
additional information
no activity with acetate, caprylate and caprate
727780
Burkholderia thailandensis
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Ruegeria pomeroyi
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Candidatus Pelagibacter ubique
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Ruegeria lacuscaerulensis
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Pseudomonas aeruginosa
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Pseudomonas aeruginosa ATCC 15692
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Candidatus Pelagibacter ubique HTCC1062
?
-
-
-
-
additional information
no activity with acetate, caprylate and caprate
727780
Burkholderia thailandensis ATCC 700388
?
-
-
-
-
additional information
no activity with acetate, caprylate and caprate
727780
Ruegeria lacuscaerulensis ITI-1157
?
-
-
-
-
additional information
no activity with caprylate and caprate
727780
Ruegeria lacuscaerulensis ITI-1157
?
-
-
-
-
Subunits (protein specific)
Subunits
Commentary
Organism
?
x * 64781, calculated from sequence
Burkholderia thailandensis
?
x * 59548, calculated from sequence
Pseudomonas aeruginosa
?
x * 59143, calculated from sequence
Ruegeria lacuscaerulensis
?
x * 59400, calculated from sequence
Ruegeria lacuscaerulensis
dimer
2 * 59000, SDS-PAGE; 2 * 61340, calculated from sequence
Candidatus Pelagibacter ubique
dimer
2 * 58000, SDS-PAGE; 2 * 59066, calculated from sequence
Ruegeria pomeroyi
dimer
2 * 59166, calculated from sequence; 2 * 62000, SDS-PAGE
Ruegeria pomeroyi
Temperature Optimum [°C] (protein specific)
Temperature Optimum [°C]
Temperature Optimum Maximum [°C]
Commentary
Organism
22
-
assay at room temperature
Candidatus Pelagibacter ubique
22
-
assay at room temperature
Ruegeria pomeroyi
Temperature Range [°C] (protein specific)
Temperature Minimum [°C]
Temperature Maximum [°C]
Commentary
Organism
10
30
activity at 10°C and at 30°C is nearly the same as at room temperature
Candidatus Pelagibacter ubique
10
30
activity at 10°C and at 30°C is nearly the same as at room temperature
Ruegeria pomeroyi
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
1
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
3.7
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
7.2
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
10.8
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
14.3
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
14.4
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
14.9
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
17.7
-
propionate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
18.7
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
22.3
-
Acrylate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
29.4
-
3-(methylthio)propanoate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
43.8
-
Butyrate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
pH Optimum (protein specific)
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
7
-
-
Ruegeria pomeroyi
7.5
-
-
Candidatus Pelagibacter ubique
7.5
-
-
Ruegeria pomeroyi
Expression
Organism
Commentary
Expression
Ruegeria pomeroyi
two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2. They are differentially expressed depending on carbon source. RPO_dmdB1 exhibits overall lower steady-state levels of mRNA than RPO_dmdB2 for dimethylsulfoniopropionate, 3-(methylthio)propanoate, or methionine as the sole source of carbon. Although the levels of the RPO_dmdB1 transcripts increases during growth on dimethylsulfoniopropionate and methionine, it is always lower than those of RPO_dmdB2. For that reason, RPO_dmdB2 appears to be the major DmdB during growth on compounds leading to 3-(methylthio)propanoate formation; two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2. They are differentially expressed depending on carbon source. RPO_dmdB1 exhibits overall lower steady-state levels of mRNA than RPO_dmdB2 for dimethylsulfoniopropionate, 3-(methylthio)propanoate, or methionine as the sole source of carbon. Although the levels of the RPO_dmdB1 transcripts increases during growth on dimethylsulfoniopropionate and methionine, it is always lower than those of RPO_dmdB2. For that reason, RPO_dmdB2 appears to be the major DmdB during growth on compounds leading to 3-(methylthio)propanoate formation
additional information
General Information
General Information
Commentary
Organism
metabolism
two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2. They are differentially expressed depending on carbon source. RPO_dmdB1 exhibits overall lower steady-state levels of mRNA than RPO_dmdB2 for dimethylsulfoniopropionate, 3-(methylthio)propanoate, or methionine as the sole source of carbon. Although the levels of the RPO_dmdB1 transcripts increases during growth on DMSP and methionine, it is always lower than those of RPO_dmdB2. For that reason, RPO_dmdB2 appears to be the major DmdB during growth on compounds leading to 3-(methylthio)propanoate formation; two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2. They are differentially expressed depending on carbon source. RPO_dmdB1 exhibits overall lower steady-state levels of mRNA than RPO_dmdB2 for dimethylsulfoniopropionate, 3-(methylthio)propanoate, or methionine as the sole source of carbon. Although the levels of the RPO_dmdB1 transcripts increases during growth on DMSP and methionine, it is always lower than those of RPO_dmdB2. For that reason, RPO_dmdB2 appears to be the major DmdB during growth on compounds leading to 3-(methylthio)propanoate formation
Ruegeria pomeroyi
General Information (protein specific)
General Information
Commentary
Organism
metabolism
two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2. They are differentially expressed depending on carbon source. RPO_dmdB1 exhibits overall lower steady-state levels of mRNA than RPO_dmdB2 for dimethylsulfoniopropionate, 3-(methylthio)propanoate, or methionine as the sole source of carbon. Although the levels of the RPO_dmdB1 transcripts increases during growth on DMSP and methionine, it is always lower than those of RPO_dmdB2. For that reason, RPO_dmdB2 appears to be the major DmdB during growth on compounds leading to 3-(methylthio)propanoate formation
Ruegeria pomeroyi
Expression (protein specific)
Organism
Commentary
Expression
Ruegeria pomeroyi
two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2. They are differentially expressed depending on carbon source. RPO_dmdB1 exhibits overall lower steady-state levels of mRNA than RPO_dmdB2 for dimethylsulfoniopropionate, 3-(methylthio)propanoate, or methionine as the sole source of carbon. Although the levels of the RPO_dmdB1 transcripts increases during growth on dimethylsulfoniopropionate and methionine, it is always lower than those of RPO_dmdB2. For that reason, RPO_dmdB2 appears to be the major DmdB during growth on compounds leading to 3-(methylthio)propanoate formation
additional information
KCat/KM [mM/s]
kcat/KM Value [1/mMs-1]
kcat/KM Value Maximum [1/mMs-1]
Substrate
Commentary
Organism
Structure
0.2
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
1.2
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
16
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
50
-
Acrylate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
71
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
213
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
233
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
271
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
505
-
propionate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
735
-
3-(methylthio)propanoate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
1031
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
3370
-
Butyrate
pH 7.5, 22°C
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
0.2
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
1.2
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
16
-
Acrylate
pH 7.5, 22°C
Ruegeria pomeroyi
50
-
Acrylate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
71
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
213
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
233
-
3-(methylthio)propanoate
pH 7.5, 22°C
Ruegeria pomeroyi
271
-
propionate
pH 7.5, 22°C
Ruegeria pomeroyi
505
-
propionate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
735
-
3-(methylthio)propanoate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
1031
-
Butyrate
pH 7.5, 22°C
Ruegeria pomeroyi
3370
-
Butyrate
pH 7.5, 22°C
Candidatus Pelagibacter ubique
Other publictions for EC 6.2.1.44
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)
727780
Bullock
Regulatory and functional dive ...
Burkholderia thailandensis, Burkholderia thailandensis ATCC 700388, Candidatus Pelagibacter ubique, Candidatus Pelagibacter ubique HTCC1062, Pseudomonas aeruginosa, Pseudomonas aeruginosa ATCC 15692, Ruegeria lacuscaerulensis, Ruegeria lacuscaerulensis ITI-1157, Ruegeria pomeroyi
J. Bacteriol.
196
1275-1285
2014
-
-
5
-
-
-
41
12
-
14
13
3
-
25
-
-
5
-
-
-
3
3
109
5
2
2
-
12
3
-
-
-
-
-
-
-
-
7
-
-
-
-
-
54
-
12
-
17
13
3
-
-
-
7
-
-
3
3
109
7
3
3
-
12
3
-
-
-
1
1
2
2
12
12
728373
Reisch
Novel pathway for assimilation ...
Ruegeria pomeroyi
Nature
473
208-211
2011
-
-
1
-
-
-
-
-
-
-
1
1
-
1
-
-
1
-
-
-
1
-
2
1
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
1
1
-
-
-
1
-
-
1
-
2
1
-
-
-
-
-
-
-
-
1
2
2
1
-
-