Literature summary for 6.2.1.44 extracted from

Bullock, H.A.; Reisch, C.R.; Burns, A.S.; Moran, M.A.; Whitman, W.B.
Regulatory and functional diversity of methylmercaptopropionate coenzyme A ligases from the dimethylsulfoniopropionate demethylation pathway in Ruegeria pomeroyi DSS-3 and other proteobacteria (2014), J. Bacteriol., 196, 1275-1285.

Cloned(Commentary)

Cloned (Comment)	Organism
expression in Escherichia coli	Ruegeria pomeroyi
expression in Escherichia coli	Candidatus Pelagibacter ubique
expression in Escherichia coli	Ruegeria lacuscaerulensis
expression in Escherichia coli	Pseudomonas aeruginosa
expression in Escherichia coli	Burkholderia thailandensis

Inhibitors

Inhibitors	Comment	Organism
(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	Comment	Organism
0.01	-	Butyrate	pH 7.5, 22°C	Candidatus Pelagibacter ubique
0.02	-	Butyrate	pH 7.5, 22°C	Ruegeria pomeroyi
0.04	-	propionate	pH 7.5, 22°C	Candidatus Pelagibacter ubique
0.04	-	propionate	pH 7.5, 22°C	Ruegeria pomeroyi
0.04	-	3-(methylthio)propanoate	pH 7.5, 22°C	Candidatus Pelagibacter ubique
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	Comment	Organism
(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	Ruegeria pomeroyi
Mg2+	required for activity	Candidatus Pelagibacter ubique
Mg2+	required for activity	Ruegeria lacuscaerulensis
Mg2+	required for activity	Pseudomonas aeruginosa
Mg2+	required for activity	Burkholderia thailandensis
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]	Comment	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	Comment (Nat. Sub.)	Natural Products	Comment (Nat. Pro.)	Rev.
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	UniProt	Comment	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)

Purification (Comment)	Organism
-	Ruegeria pomeroyi
-	Candidatus Pelagibacter ubique
-	Ruegeria lacuscaerulensis
-	Pseudomonas aeruginosa
-	Burkholderia thailandensis

Specific Activity [micromol/min/mg]

Specific Activity Minimum [µmol/min/mg]	Specific Activity Maximum [µmol/min/mg]	Comment	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	Comment Substrates	Organism	Products	Comment (Products)	Rev.
ATP + 3-(methylthio)propanoate + CoA	-	Ruegeria pomeroyi	AMP + diphosphate + 3-(methylthio)propionyl-CoA	-	?
ATP + 3-(methylthio)propanoate + CoA	-	Candidatus Pelagibacter ubique	AMP + diphosphate + 3-(methylthio)propionyl-CoA	-	?
ATP + 3-(methylthio)propanoate + CoA	-	Ruegeria lacuscaerulensis	AMP + diphosphate + 3-(methylthio)propionyl-CoA	-	?
ATP + 3-(methylthio)propanoate + CoA	-	Pseudomonas aeruginosa	AMP + diphosphate + 3-(methylthio)propionyl-CoA	-	?
ATP + 3-(methylthio)propanoate + CoA	-	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	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	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	Ruegeria pomeroyi	AMP + diphosphate + 3-methylmercaptopropionyl-CoA	-	?
ATP + 3-methylbutanoate + CoA	activity is 14% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + 3-methylbutanoyl-CoA	-	?
ATP + 3-methylbutanoate + CoA	activity is 15% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + 3-methylbutanoyl-CoA	-	?
ATP + 3-methylbutanoate + CoA	activity is 18% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + 3-methylbutanoyl-CoA	-	?
ATP + 3-methylbutanoate + CoA	activity is 19% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + 3-methylbutanoyl-CoA	-	?
ATP + 3-methylbutanoate + CoA	activity is 4% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + 3-methylbutanoyl-CoA	-	?
ATP + 3-methylbutanoate + CoA	activity is 5% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + 3-methylbutanoyl-CoA	-	?
ATP + 3-methylbutanoate + CoA	activity is 8% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + 3-methylbutanoyl-CoA	-	?
ATP + acetate + CoA	activity is 10% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + acetyl-CoA	-	?
ATP + acetate + CoA	activity is 10% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + acetyl-CoA	-	?
ATP + acetate + CoA	activity is 110% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + acetyl-CoA	-	?
ATP + acetate + CoA	activity is 151% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + acetyl-CoA	-	?
ATP + acetate + CoA	activity is 110% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa ATCC 15692	AMP + diphosphate + acetyl-CoA	-	?
ATP + acetate + CoA	activity is 10% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique HTCC1062	AMP + diphosphate + acetyl-CoA	-	?
ATP + acetate + CoA	activity is 151% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis ITI-1157	AMP + diphosphate + acetyl-CoA	-	?
ATP + acrylate + CoA	activity is 15% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 29% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 50% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 56% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 6% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 65% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 78% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 65% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa ATCC 15692	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 50% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique HTCC1062	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 15% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis ATCC 700388	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 29% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis ITI-1157	AMP + diphosphate + acryloyl-CoA	-	?
ATP + acrylate + CoA	activity is 6% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis ITI-1157	AMP + diphosphate + acryloyl-CoA	-	?
ATP + butyrate + CoA	activity is 113% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 121% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 160% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 36% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 73% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 81% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 93% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 121% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa ATCC 15692	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 160% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique HTCC1062	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 93% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis ATCC 700388	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 113% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis ITI-1157	AMP + diphosphate + butyryl-CoA	-	?
ATP + butyrate + CoA	activity is 81% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis ITI-1157	AMP + diphosphate + butyryl-CoA	-	?
ATP + crotonate + CoA	activity is 109% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + crotonyl-CoA	-	?
ATP + crotonate + CoA	activity is 2% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + crotonyl-CoA	-	?
ATP + crotonate + CoA	activity is 32% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + crotonyl-CoA	-	?
ATP + crotonate + CoA	activity is 41% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + crotonyl-CoA	-	?
ATP + crotonate + CoA	activity is 63% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + crotonyl-CoA	-	?
ATP + crotonate + CoA	activity is 63% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + crotonyl-CoA	-	?
ATP + crotonate + CoA	activity is 87% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + crotonyl-CoA	-	?
ATP + hexanoate + CoA	activity is 12% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + hexanoyl-CoA	-	?
ATP + hexanoate + CoA	activity is 17% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + hexanoyl-CoA	-	?
ATP + hexanoate + CoA	activity is 17% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + hexanoyl-CoA	-	?
ATP + hexanoate + CoA	activity is 27% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + hexanoyl-CoA	-	?
ATP + hexanoate + CoA	activity is 5% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + hexanoyl-CoA	-	?
ATP + hexanoate + CoA	activity is 62% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + hexanoyl-CoA	-	?
ATP + hexanoate + CoA	activity is 94% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + hexanoyl-CoA	-	?
ATP + isobutyrate + CoA	activity is 10% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + isobutyryl-CoA	-	?
ATP + isobutyrate + CoA	activity is 12% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + isobutyryl-CoA	-	?
ATP + isobutyrate + CoA	activity is 13% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + isobutyryl-CoA	-	?
ATP + isobutyrate + CoA	activity is 30% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + isobutyryl-CoA	-	?
ATP + isobutyrate + CoA	activity is 48% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + isobutyryl-CoA	-	?
ATP + isobutyrate + CoA	activity is 5% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + isobutyryl-CoA	-	?
ATP + isobutyrate + CoA	activity is 7% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + isobutyryl-CoA	-	?
ATP + methylbutyrate + CoA	activity is 10% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + methylbutyryl-CoA	-	?
ATP + methylbutyrate + CoA	activity is 18% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + methylbutyryl-CoA	-	?
ATP + methylbutyrate + CoA	activity is 20% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + methylbutyryl-CoA	-	?
ATP + methylbutyrate + CoA	activity is 23% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + methylbutyryl-CoA	-	?
ATP + methylbutyrate + CoA	activity is 24% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + methylbutyryl-CoA	-	?
ATP + methylbutyrate + CoA	activity is 39% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + methylbutyryl-CoA	-	?
ATP + methylbutyrate + CoA	activity is 8% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + methylbutyryl-CoA	-	?
ATP + pentanoate + CoA	activity is 179% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + pentanoate + CoA	activity is 18% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + pentanoate + CoA	activity is 31% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + pentanoate + CoA	activity is 49% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + pentanoate + CoA	activity is 51% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + pentanoate + CoA	activity is 68% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + pentanoate + CoA	activity is 91% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + pentanoate + CoA	activity is 68% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis ATCC 700388	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + pentanoate + CoA	activity is 179% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis ITI-1157	AMP + diphosphate + pentanoyl-CoA	-	?
ATP + propionate + CoA	activity is 124% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 126% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 13% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 16% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 45% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 72% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 77% of the activity with 3-(methylthio)propanoate	Ruegeria pomeroyi	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 124% of the activity with 3-(methylthio)propanoate	Pseudomonas aeruginosa ATCC 15692	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 13% of the activity with 3-(methylthio)propanoate	Candidatus Pelagibacter ubique HTCC1062	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 45% of the activity with 3-(methylthio)propanoate	Burkholderia thailandensis ATCC 700388	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 72% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis ITI-1157	AMP + diphosphate + propionyl-CoA	-	?
ATP + propionate + CoA	activity is 126% of the activity with 3-(methylthio)propanoate	Ruegeria lacuscaerulensis ITI-1157	AMP + diphosphate + propionyl-CoA	-	?
additional information	no activity with acetate, caprylate and caprate	Ruegeria pomeroyi	?	-	?
additional information	no activity with acetate, caprylate and caprate	Ruegeria lacuscaerulensis	?	-	?
additional information	no activity with acetate, caprylate and caprate	Burkholderia thailandensis	?	-	?
additional information	no activity with caprylate and caprate	Ruegeria pomeroyi	?	-	?
additional information	no activity with caprylate and caprate	Candidatus Pelagibacter ubique	?	-	?
additional information	no activity with caprylate and caprate	Ruegeria lacuscaerulensis	?	-	?
additional information	no activity with caprylate and caprate	Pseudomonas aeruginosa	?	-	?
additional information	no activity with caprylate and caprate	Pseudomonas aeruginosa ATCC 15692	?	-	?
additional information	no activity with caprylate and caprate	Candidatus Pelagibacter ubique HTCC1062	?	-	?
additional information	no activity with acetate, caprylate and caprate	Burkholderia thailandensis ATCC 700388	?	-	?
additional information	no activity with acetate, caprylate and caprate	Ruegeria lacuscaerulensis ITI-1157	?	-	?
additional information	no activity with caprylate and caprate	Ruegeria lacuscaerulensis ITI-1157	?	-	?

Subunits

Subunits	Comment	Organism
?	x * 59143, calculated from sequence	Ruegeria lacuscaerulensis
?	x * 59400, calculated from sequence	Ruegeria lacuscaerulensis
?	x * 59548, calculated from sequence	Pseudomonas aeruginosa
?	x * 64781, calculated from sequence	Burkholderia thailandensis
dimer	2 * 58000, SDS-PAGE	Ruegeria pomeroyi
dimer	2 * 62000, SDS-PAGE	Ruegeria pomeroyi
dimer	2 * 59000, SDS-PAGE	Candidatus Pelagibacter ubique
dimer	2 * 59066, calculated from sequence	Ruegeria pomeroyi
dimer	2 * 59166, calculated from sequence	Ruegeria pomeroyi
dimer	2 * 61340, calculated from sequence	Candidatus Pelagibacter ubique

Synonyms

Synonyms	Comment	Organism
BTH_DmdB2	-	Burkholderia thailandensis
BTH_I2141	-	Burkholderia thailandensis
DmdB	-	Candidatus Pelagibacter ubique
DmdB	-	Ruegeria lacuscaerulensis
DmdB	-	Pseudomonas aeruginosa
DmdB	-	Burkholderia thailandensis
DmdB	two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2	Ruegeria pomeroyi
methylmercaptopropionate-coenzyme A ligase	-	Ruegeria pomeroyi
methylmercaptopropionate-coenzyme A ligase	-	Candidatus Pelagibacter ubique
methylmercaptopropionate-coenzyme A ligase	-	Ruegeria lacuscaerulensis
methylmercaptopropionate-coenzyme A ligase	-	Pseudomonas aeruginosa
methylmercaptopropionate-coenzyme A ligase	-	Burkholderia thailandensis
MMPA-CoA ligase	-	Ruegeria pomeroyi
MMPA-CoA ligase	-	Candidatus Pelagibacter ubique
MMPA-CoA ligase	-	Ruegeria lacuscaerulensis
MMPA-CoA ligase	-	Pseudomonas aeruginosa
MMPA-CoA ligase	-	Burkholderia thailandensis
PA4198	-	Pseudomonas aeruginosa
PA_DmdB1	-	Pseudomonas aeruginosa
PU_DmdB1	-	Candidatus Pelagibacter ubique
RL_DmdB1	-	Ruegeria lacuscaerulensis
RL_DmdB2	-	Ruegeria lacuscaerulensis
RPO_DmdB1	two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2	Ruegeria pomeroyi
RPO_DmdB2	two forms of DmdB are present in the marine roseobacter Ruegeria pomeroyi DSS-3, RPO_DmdB1 and RPO_DmdB2	Ruegeria pomeroyi
SAR11_0248	-	Candidatus Pelagibacter ubique
SL1157_1815	-	Ruegeria lacuscaerulensis
SL1157_2728	-	Ruegeria lacuscaerulensis
SPO0677	-	Ruegeria pomeroyi
SPO2045	-	Ruegeria pomeroyi

Temperature Optimum [°C]

Temperature Optimum [°C]	Temperature Optimum Maximum [°C]	Comment	Organism
22	-	assay at room temperature	Ruegeria pomeroyi
22	-	assay at room temperature	Candidatus Pelagibacter ubique

Temperature Range [°C]

Temperature Minimum [°C]	Temperature Maximum [°C]	Comment	Organism
10	30	activity at 10°C and at 30°C is nearly the same as at room temperature	Ruegeria pomeroyi
10	30	activity at 10°C and at 30°C is nearly the same as at room temperature	Candidatus Pelagibacter ubique

Turnover Number [1/s]

Turnover Number Minimum [1/s]	Turnover Number Maximum [1/s]	Substrate	Comment	Organism
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	Comment	Organism
7	-	-	Ruegeria pomeroyi
7.5	-	-	Ruegeria pomeroyi
7.5	-	-	Candidatus Pelagibacter ubique

Expression

Organism	Comment	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

General Information

General Information	Comment	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

kcat/KM [mM/s]

kcat/KM Value [1/mMs^-1]	kcat/KM Value Maximum [1/mMs^-1]	Substrate	Comment	Organism
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