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show all sequences of 1.4.99.6

Mechanistic and computational studies of the reductive half-reaction of tyrosine to phenylalanine active site variants of D-arginine dehydrogenase

Gannavaram, S.; Sirin, S.; Sherman, W.; Gadda, G.; Biochemistry 53, 6574-6583 (2014)

Data extracted from this reference:

Cloned(Commentary)
Commentary
Organism
-
Pseudomonas aeruginosa
Engineering
Amino acid exchange
Commentary
Organism
Y249F
steady-state kinetic parameters similar to those of the wild-type enzyme. Rate constants for flavin reduction (kred) with D-leucine are 3fold smaller than the wild-type value with similar pKa values for an unprotonated group of about 10.0. Cleavage of the substrate NH and CH bonds in the enzyme variant occurs in synchronous fashion, which can be reconciled with a hydride transfer mechanism
Pseudomonas aeruginosa
Y53F
steady-state kinetic parameters similar to those of the wild-type enzyme. Rate constants for flavin reduction (kred) with D-leucineare 3fold smaller than the wild-type value with similar pKa values for an unprotonated group of about 10.0. Cleavage of the substrate NH and CH bonds in the enzyme variant occurs in synchronous fashion, which can be reconciled with a hydride transfer mechanism
Pseudomonas aeruginosa
KM Value [mM]
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.06
-
D-arginine
mutant Y249F, pH 8.7, 25°C
Pseudomonas aeruginosa
0.36
-
D-arginine
mutant Y53F, pH 8.7, 25°C
Pseudomonas aeruginosa
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Pseudomonas aeruginosa
Q9HXE3
-
-
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
D-arginine + phenazine methosulfate
-
733354
Pseudomonas aeruginosa
5-guanidino-2-oxopentanoate + NH3 + reduced phenazine methosulfate
overall reaction
-
-
?
Turnover Number [1/s]
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
204
-
D-arginine
mutant Y249F, pH 8.7, 25°C
Pseudomonas aeruginosa
420
-
D-arginine
mutant Y53F, pH 8.7, 25°C
Pseudomonas aeruginosa
Cloned(Commentary) (protein specific)
Commentary
Organism
-
Pseudomonas aeruginosa
Engineering (protein specific)
Amino acid exchange
Commentary
Organism
Y249F
steady-state kinetic parameters similar to those of the wild-type enzyme. Rate constants for flavin reduction (kred) with D-leucine are 3fold smaller than the wild-type value with similar pKa values for an unprotonated group of about 10.0. Cleavage of the substrate NH and CH bonds in the enzyme variant occurs in synchronous fashion, which can be reconciled with a hydride transfer mechanism
Pseudomonas aeruginosa
Y53F
steady-state kinetic parameters similar to those of the wild-type enzyme. Rate constants for flavin reduction (kred) with D-leucineare 3fold smaller than the wild-type value with similar pKa values for an unprotonated group of about 10.0. Cleavage of the substrate NH and CH bonds in the enzyme variant occurs in synchronous fashion, which can be reconciled with a hydride transfer mechanism
Pseudomonas aeruginosa
KM Value [mM] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.06
-
D-arginine
mutant Y249F, pH 8.7, 25°C
Pseudomonas aeruginosa
0.36
-
D-arginine
mutant Y53F, pH 8.7, 25°C
Pseudomonas aeruginosa
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
D-arginine + phenazine methosulfate
-
733354
Pseudomonas aeruginosa
5-guanidino-2-oxopentanoate + NH3 + reduced phenazine methosulfate
overall reaction
-
-
?
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
204
-
D-arginine
mutant Y249F, pH 8.7, 25°C
Pseudomonas aeruginosa
420
-
D-arginine
mutant Y53F, pH 8.7, 25°C
Pseudomonas aeruginosa
KCat/KM [mM/s]
kcat/KM Value [1/mMs-1]
kcat/KM Value Maximum [1/mMs-1]
Substrate
Commentary
Organism
Structure
1200
-
D-arginine
mutant Y53F, pH 8.7, 25°C
Pseudomonas aeruginosa
3400
-
D-arginine
mutant Y249F, pH 8.7, 25°C
Pseudomonas aeruginosa
KCat/KM [mM/s] (protein specific)
KCat/KM Value [1/mMs-1]
KCat/KM Value Maximum [1/mMs-1]
Substrate
Commentary
Organism
Structure
1200
-
D-arginine
mutant Y53F, pH 8.7, 25°C
Pseudomonas aeruginosa
3400
-
D-arginine
mutant Y249F, pH 8.7, 25°C
Pseudomonas aeruginosa
Other publictions for EC 1.4.99.6
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)
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Ouedraogo
Importance of loop L1 dynamics ...
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4
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733215
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Importance of glutamate 87 and ...
Pseudomonas aeruginosa
Arch. Biochem. Biophys.
568
56-63
2015
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2
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2
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4
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5
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8
8
724092
Akita
Efficient synthesis of D-branc ...
Ureibacillus thermosphaericus, Ureibacillus thermosphaericus A1 (NBRC 108682)
Appl. Microbiol. Biotechnol.
98
1135-1143
2014
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1
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6
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1
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1
1
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1
1
733354
Gannavaram
Mechanistic and computational ...
Pseudomonas aeruginosa
Biochemistry
53
6574-6583
2014
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2
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2
2
724690
Oliver
Impact of D-amino acid dehydro ...
Pseudomonas aeruginosa
Can. J. Microbiol.
59
598-603
2013
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1
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5
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1
1
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726275
Bardaweel
E. coli histidine triad nucleo ...
Escherichia coli
PLoS ONE
6
e20897
2011
1
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6
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733330
Fu
Atomic-resolution structure of ...
Pseudomonas aeruginosa
Biochemistry
50
6292-6294
2011
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1
1
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734025
Yuan
Insights on the mechanism of a ...
Pseudomonas aeruginosa
J. Am. Chem. Soc.
133
18957-18965
2011
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748083
He
Regulation and characterizati ...
Pseudomonas aeruginosa
J. Bacteriol.
193
2107-2115
2011
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1
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9
1
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3
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10
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1
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9
1
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10
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1
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9
1
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1
3
3
1
9
9
695533
Tanigawa
D-Amino acid dehydrogenase fro ...
Helicobacter pylori, Helicobacter pylori NCTC 11637
Amino Acids
38
247-255
2010
-
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1
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5
2
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1
2
2
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2
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1
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8
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16
1
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8
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16
1
1
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1
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733326
Fu
Conformational changes and sub ...
Pseudomonas aeruginosa
Biochemistry
49
8535-8545
2010
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1
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7
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2
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7
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7
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7
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7
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7
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7
7
733327
Yuan
Steady-state kinetic mechanism ...
Pseudomonas aeruginosa
Biochemistry
49
9542-9550
2010
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2
2
705545
Ye
Heterologous expression of the ...
Helicobacter pylori NCTC 11637 = CCUG 17874 = ATCC 43504
Microbiol. Res.
165
268-275
2009
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1
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4
2
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1
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4
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705583
Li
Regulation of the dauBAR Opero ...
Pseudomonas aeruginosa
Microbiology
156
60-71
2009
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2
7
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7
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1
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7
1
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1
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2
2
7
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7
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1
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7
1
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1
7
7
706547
Li
Arginine racemization by coupl ...
Pseudomonas aeruginosa
Proc. Natl. Acad. Sci. USA
106
906-911
2009
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394974
Tsukada
-
D-Amino acid dehydrogenase (Ps ...
Pseudomonas fluorescens
Methods Enzymol.
17B
623-624
1971
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1
3
4
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2
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30
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30
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394975
Tsukada
D-Amino acid dehydrogenases of ...
Pseudomonas fluorescens
J. Biol. Chem.
241
4522-4528
1966
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