BRENDA - Enzyme Database show
show all sequences of 1.3.98.3

Characterization and mechanistic study of a radical SAM dehydrogenase in the biosynthesis of butirosin

Yokoyama, K.; Numakura, M.; Kudo, F.; Ohmori, D.; Eguchi, T.; J. Am. Chem. Soc. 129, 15147-15155 (2007)

Data extracted from this reference:

Cloned(Commentary)
Commentary
Organism
expressed in Escherichia coli strain BL21(DE3)
Bacillus circulans
Inhibitors
Inhibitors
Commentary
Organism
Structure
2-deoxy-scyllo-inosamine
uncompetitive substrate inhibition
Bacillus circulans
additional information
not inhibited by S-adenosyl-L-methionine
Bacillus circulans
KM Value [mM]
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.022
-
2-deoxy-scyllo-inosamine
in 50 mM HEPES-NaOH (pH 8.0) in the presence of 10 mM sodium dithionite at 28°C
Bacillus circulans
0.46
-
S-adenosyl-L-methionine
apparent value, in 50 mM HEPES-NaOH (pH 8.0) in the presence of 10 mM sodium dithionite at 28°C
Bacillus circulans
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Bacillus circulans
-
-
-
Purification (Commentary)
Commentary
Organism
His-bind resin column chromatography
Bacillus circulans
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
2-deoxy-scyllo-inosamine + S-adenosyl-L-methionine
100% activity
687282
Bacillus circulans
3-amino-2,3-dideoxy-scyllo-inosose + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
2-deoxystreptamine + S-adenosyl-L-methionine
14.4% activity compared to 2-deoxy-scyllo-inosamine
687282
Bacillus circulans
? + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
additional information
no activity with 1L-chiro-inositol, muco-inositol, allo-inositol, D-glucose, D-glucosamine, D-xylose, 1D-chiro-inositol, and 2,3-dideoxy-scyllo-inosose
687282
Bacillus circulans
?
-
-
-
-
myo-inositol + S-adenosyl-L-methionine
0.9% activity compared to 2-deoxy-scyllo-inosamine
687282
Bacillus circulans
? + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
scyllo-inositol + S-adenosyl-L-methionine
3.3% activity compared to 2-deoxy-scyllo-inosamine
687282
Bacillus circulans
? + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
Turnover Number [1/s]
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
0.02
-
S-adenosyl-L-methionine
apparent value, in 50 mM HEPES-NaOH (pH 8.0) in the presence of 10 mM sodium dithionite at 28°C
Bacillus circulans
0.038
-
2-deoxy-scyllo-inosamine
in 50 mM HEPES-NaOH (pH 8.0) in the presence of 10 mM sodium dithionite at 28°C
Bacillus circulans
Cofactor
Cofactor
Commentary
Organism
Structure
4Fe-4S-center
-
Bacillus circulans
Cloned(Commentary) (protein specific)
Commentary
Organism
expressed in Escherichia coli strain BL21(DE3)
Bacillus circulans
Cofactor (protein specific)
Cofactor
Commentary
Organism
Structure
4Fe-4S-center
-
Bacillus circulans
Inhibitors (protein specific)
Inhibitors
Commentary
Organism
Structure
2-deoxy-scyllo-inosamine
uncompetitive substrate inhibition
Bacillus circulans
additional information
not inhibited by S-adenosyl-L-methionine
Bacillus circulans
KM Value [mM] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.022
-
2-deoxy-scyllo-inosamine
in 50 mM HEPES-NaOH (pH 8.0) in the presence of 10 mM sodium dithionite at 28°C
Bacillus circulans
0.46
-
S-adenosyl-L-methionine
apparent value, in 50 mM HEPES-NaOH (pH 8.0) in the presence of 10 mM sodium dithionite at 28°C
Bacillus circulans
Purification (Commentary) (protein specific)
Commentary
Organism
His-bind resin column chromatography
Bacillus circulans
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
2-deoxy-scyllo-inosamine + S-adenosyl-L-methionine
100% activity
687282
Bacillus circulans
3-amino-2,3-dideoxy-scyllo-inosose + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
2-deoxystreptamine + S-adenosyl-L-methionine
14.4% activity compared to 2-deoxy-scyllo-inosamine
687282
Bacillus circulans
? + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
additional information
no activity with 1L-chiro-inositol, muco-inositol, allo-inositol, D-glucose, D-glucosamine, D-xylose, 1D-chiro-inositol, and 2,3-dideoxy-scyllo-inosose
687282
Bacillus circulans
?
-
-
-
-
myo-inositol + S-adenosyl-L-methionine
0.9% activity compared to 2-deoxy-scyllo-inosamine
687282
Bacillus circulans
? + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
scyllo-inositol + S-adenosyl-L-methionine
3.3% activity compared to 2-deoxy-scyllo-inosamine
687282
Bacillus circulans
? + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
0.02
-
S-adenosyl-L-methionine
apparent value, in 50 mM HEPES-NaOH (pH 8.0) in the presence of 10 mM sodium dithionite at 28°C
Bacillus circulans
0.038
-
2-deoxy-scyllo-inosamine
in 50 mM HEPES-NaOH (pH 8.0) in the presence of 10 mM sodium dithionite at 28°C
Bacillus circulans
Other publictions for EC 1.3.98.3
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)
746121
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1
-
1
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4
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1
2
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2
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1
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2
2
726009
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1
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4
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4
4
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745799
Azzouzi
Coproporphyrin III excretion ...
Rubrivivax gelatinosus
Mol. Microbiol.
88
339-351
2013
-
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-
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1
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1
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4
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1
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1
2
2
1
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724235
Abicht
Lactococcus lactis HemW (HemN) ...
Lactococcus lactis
Biochem. J.
442
335-343
2012
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1
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2
1
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1
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1
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2
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1
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1
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1
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1
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3
3
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711084
Shaveta
Structural characterization re ...
Homo sapiens
Biochem. Biophys. Res. Commun.
391
1390-1395
2010
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1
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1
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3
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1
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1
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1
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1
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1
1
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711348
Rand
The oxygen-independent copropo ...
Escherichia coli
Biol. Chem.
391
55-63
2010
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1
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1
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1
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6
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1
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1
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1
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712016
Duschene
The antiviral protein viperin ...
Homo sapiens
FEBS Lett.
584
1263-1267
2010
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1
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1
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1
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2
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1
1
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713258
Goto
Functional differentiation of ...
Synechocystis sp.
Plant Cell Physiol.
51
650-663
2010
2
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1
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1
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1
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2
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1
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1
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1
1
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-
685280
Yokoyama
Mechanistic study on the react ...
Bacillus circulans
Biochemistry
47
8950-8960
2008
-
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1
-
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-
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1
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1
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1
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1
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1
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1
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1
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686237
Frey
The radical SAM superfamily ...
Homo sapiens
Crit. Rev. Biochem. Mol. Biol.
43
63-88
2008
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687282
Yokoyama
Characterization and mechanist ...
Bacillus circulans
J. Am. Chem. Soc.
129
15147-15155
2007
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1
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2
2
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2
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1
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5
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5
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2
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674567
Layer
The substrate radical of Esche ...
Escherichia coli
J. Biol. Chem.
281
15727-15734
2006
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1
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672473
Layer
Structural and functional comp ...
Bacillus subtilis, Cupriavidus necator, Escherichia coli, Rhodobacter sphaeroides, Salmonella enterica subsp. enterica serovar Typhimurium
Biol. Chem.
386
971-980
2005
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6
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674462
Layer
Radical S-adenosylmethionine e ...
Escherichia coli
J. Biol. Chem.
280
29038-29046
2005
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1
8
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658501
Layer
Structure and function of radi ...
Escherichia coli
Curr. Opin. Chem. Biol.
8
468-476
2004
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655340
Layer
Crystal structure of coproporp ...
Escherichia coli
EMBO J.
22
6214-6224
2003
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1
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656073
Layer
Oxygen-independent coproporphy ...
Escherichia coli
J. Biol. Chem.
277
34136-34142
2002
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8
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2
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1
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4
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1
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1
1
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4
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4
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8
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1
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