BRENDA - Enzyme Database show
show all sequences of 2.4.2.6

The c-Myc target gene Rcl (C6orf108) encodes a novel enzyme, deoxynucleoside 5-monophosphate N-glycosidase

Ghiorghi, Y.K.; Zeller, K.I.; Dang, C.V.; Kaminski, P.A.; J. Biol. Chem. 282, 8150-8156 (2007)

Data extracted from this reference:

Cloned(Commentary)
Commentary
Organism
gene Rc1, expression of soluble unmodified enzyme and His-tagged enzymes in Escherichia coli strain Bli5 (BL21 (DE3) pDIA17)
Rattus norvegicus
Engineering
Amino acid exchange
Commentary
Organism
E105A
site-directed mutagenesis, the mutant shows about 200fold reduced activity and a 170fold increased Km compared to the wild-type enzyme
Rattus norvegicus
Inhibitors
Inhibitors
Commentary
Organism
Structure
6-methylthio-GMP
competitive versus dGMP
Rattus norvegicus
GMP
competitive versus dGMP
Rattus norvegicus
Zn2+
-
Rattus norvegicus
KM Value [mM]
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
additional information
-
additional information
kinetics and substrate specifiicty
Rattus norvegicus
0.048
-
dGMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.25
-
dAMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.45
-
dIMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
4
-
dCMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
5
-
dGMP
pH 7.5, 37°C, recombinant mutant E105A
Rattus norvegicus
15
-
dUMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
50
-
dTMP
above, pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
Metals/Ions
Metals/Ions
Commentary
Organism
Structure
additional information
no effect by Ca2+, Mg2+, Na+, and K+
Rattus norvegicus
Molecular Weight [Da]
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
17649
-
1 * 17649, unmodified recombinant enzyme, mass spectrometry, 1 * 19812, His-tagged recombinant enzyme, mass spectrometry, 1 * 20440, His-tagged recombinant enzyme, SDS-PAGE; 2 * 17649, unmodified recombinant enzyme, mass spectrometry, 2 * 17649, unmodified recombinant enzyme, mass spectrometry, 2 * 20440, His-tagged recombinant enzyme, SDS-PAGE
Rattus norvegicus
19812
-
1 * 17649, unmodified recombinant enzyme, mass spectrometry, 1 * 19812, His-tagged recombinant enzyme, mass spectrometry, 1 * 20440, His-tagged recombinant enzyme, SDS-PAGE
Rattus norvegicus
20440
-
monomeric enzyme, equilibrium sedimentation ultracentrifugation
Rattus norvegicus
40520
-
monomeric enzyme, equilibrium sedimentation ultracentrifugation
Rattus norvegicus
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Rattus norvegicus
-
gene Rc1
-
Purification (Commentary)
Commentary
Organism
recombinant unmodified enzyme from Escherichia coli strain Bli5 (BL21 (DE3) pDIA17) by anion exchange chromatography and gel filtration, recombinant His-tagged enzyme by nickel affinity chromatography, over 95% purity
Rattus norvegicus
Reaction
Reaction
Commentary
Organism
2-deoxy-D-ribosyl-base1 + base2 = 2-deoxy-D-ribosyl-base2 + base1
Glu105, Asp-99 and Asn-172 are catalytic active site residues
Rattus norvegicus
Source Tissue
Source Tissue
Commentary
Organism
Textmining
fibroblast
-
Rattus norvegicus
-
Storage Stability
Storage Stability
Organism
-20°C, purified recombinant enzyme, 1 mg/ml, at least 1 year without loss of activity
Rattus norvegicus
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
dAMP + base
-
674900
Rattus norvegicus
dNMP + adenine
-
-
-
r
dCMP + base
-
674900
Rattus norvegicus
dNMP + cytidine
-
-
-
r
dGMP + base
dGMP is the best substrate
674900
Rattus norvegicus
dNMP + guanine
-
-
-
r
dIMP + base
-
674900
Rattus norvegicus
dNMP + hypoxanthine
-
-
-
r
dTMP + base
-
674900
Rattus norvegicus
dNMP + thymine
-
-
-
r
dUMP + base
-
674900
Rattus norvegicus
dNMP + uracil
-
-
-
r
additional information
RCL cleaves the N-glycosidic bond of deoxynucleoside 5'-monophosphates to yield two reaction products, deoxyribose 5-phosphate and purine or pyrimidine base
674900
Rattus norvegicus
?
-
-
-
-
Subunits
Subunits
Commentary
Organism
dimer
2 * 17649, unmodified recombinant enzyme, mass spectrometry, 2 * 17649, unmodified recombinant enzyme, mass spectrometry, 2 * 20440, His-tagged recombinant enzyme, SDS-PAGE
Rattus norvegicus
monomer
1 * 17649, unmodified recombinant enzyme, mass spectrometry, 1 * 19812, His-tagged recombinant enzyme, mass spectrometry, 1 * 20440, His-tagged recombinant enzyme, SDS-PAGE
Rattus norvegicus
More
at 0.003 mM the His-RCL is mostly monomeric, at 0.03 mM, His-RCL is mostly dimeric, at 0.01 mM His-RCL is at equilibrium between monomeric and dimeric states, overview
Rattus norvegicus
Temperature Optimum [°C]
Temperature Optimum [°C]
Temperature Optimum Maximum [°C]
Commentary
Organism
37
-
assay at
Rattus norvegicus
Turnover Number [1/s]
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
0.0066
-
dAMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.0066
-
dIMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.0178
-
dGMP
pH 7.5, 37°C, recombinant mutant E105A
Rattus norvegicus
0.0231
-
dCMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.0297
-
dGMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.158
-
dUMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
pH Optimum
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
6
-
-
Rattus norvegicus
pH Range
pH Minimum
pH Maximum
Commentary
Organism
5
8
50% of maximal activity at pH 7.0 with substrate dCMP, 20% with dGMP, 10% of maximal activity at pH 8.0 with both substrates
Rattus norvegicus
Ki Value [mM]
Ki Value [mM]
Ki Value maximum [mM]
Inhibitor
Commentary
Organism
Structure
0.01
-
6-methylthio-GMP
pH 7.5, 37°C, recombinant wild-type enzyme, versus dGMP
Rattus norvegicus
0.02
-
GMP
pH 7.5, 37°C, recombinant wild-type enzyme, versus dGMP
Rattus norvegicus
Cloned(Commentary) (protein specific)
Commentary
Organism
gene Rc1, expression of soluble unmodified enzyme and His-tagged enzymes in Escherichia coli strain Bli5 (BL21 (DE3) pDIA17)
Rattus norvegicus
Engineering (protein specific)
Amino acid exchange
Commentary
Organism
E105A
site-directed mutagenesis, the mutant shows about 200fold reduced activity and a 170fold increased Km compared to the wild-type enzyme
Rattus norvegicus
Inhibitors (protein specific)
Inhibitors
Commentary
Organism
Structure
6-methylthio-GMP
competitive versus dGMP
Rattus norvegicus
GMP
competitive versus dGMP
Rattus norvegicus
Zn2+
-
Rattus norvegicus
Ki Value [mM] (protein specific)
Ki Value [mM]
Ki Value maximum [mM]
Inhibitor
Commentary
Organism
Structure
0.01
-
6-methylthio-GMP
pH 7.5, 37°C, recombinant wild-type enzyme, versus dGMP
Rattus norvegicus
0.02
-
GMP
pH 7.5, 37°C, recombinant wild-type enzyme, versus dGMP
Rattus norvegicus
KM Value [mM] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
additional information
-
additional information
kinetics and substrate specifiicty
Rattus norvegicus
0.048
-
dGMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.25
-
dAMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.45
-
dIMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
4
-
dCMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
5
-
dGMP
pH 7.5, 37°C, recombinant mutant E105A
Rattus norvegicus
15
-
dUMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
50
-
dTMP
above, pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
Metals/Ions (protein specific)
Metals/Ions
Commentary
Organism
Structure
additional information
no effect by Ca2+, Mg2+, Na+, and K+
Rattus norvegicus
Molecular Weight [Da] (protein specific)
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
17649
-
1 * 17649, unmodified recombinant enzyme, mass spectrometry, 1 * 19812, His-tagged recombinant enzyme, mass spectrometry, 1 * 20440, His-tagged recombinant enzyme, SDS-PAGE; 2 * 17649, unmodified recombinant enzyme, mass spectrometry, 2 * 17649, unmodified recombinant enzyme, mass spectrometry, 2 * 20440, His-tagged recombinant enzyme, SDS-PAGE
Rattus norvegicus
19812
-
1 * 17649, unmodified recombinant enzyme, mass spectrometry, 1 * 19812, His-tagged recombinant enzyme, mass spectrometry, 1 * 20440, His-tagged recombinant enzyme, SDS-PAGE
Rattus norvegicus
20440
-
monomeric enzyme, equilibrium sedimentation ultracentrifugation
Rattus norvegicus
40520
-
monomeric enzyme, equilibrium sedimentation ultracentrifugation
Rattus norvegicus
Purification (Commentary) (protein specific)
Commentary
Organism
recombinant unmodified enzyme from Escherichia coli strain Bli5 (BL21 (DE3) pDIA17) by anion exchange chromatography and gel filtration, recombinant His-tagged enzyme by nickel affinity chromatography, over 95% purity
Rattus norvegicus
Source Tissue (protein specific)
Source Tissue
Commentary
Organism
Textmining
fibroblast
-
Rattus norvegicus
-
Storage Stability (protein specific)
Storage Stability
Organism
-20°C, purified recombinant enzyme, 1 mg/ml, at least 1 year without loss of activity
Rattus norvegicus
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
dAMP + base
-
674900
Rattus norvegicus
dNMP + adenine
-
-
-
r
dCMP + base
-
674900
Rattus norvegicus
dNMP + cytidine
-
-
-
r
dGMP + base
dGMP is the best substrate
674900
Rattus norvegicus
dNMP + guanine
-
-
-
r
dIMP + base
-
674900
Rattus norvegicus
dNMP + hypoxanthine
-
-
-
r
dTMP + base
-
674900
Rattus norvegicus
dNMP + thymine
-
-
-
r
dUMP + base
-
674900
Rattus norvegicus
dNMP + uracil
-
-
-
r
additional information
RCL cleaves the N-glycosidic bond of deoxynucleoside 5'-monophosphates to yield two reaction products, deoxyribose 5-phosphate and purine or pyrimidine base
674900
Rattus norvegicus
?
-
-
-
-
Subunits (protein specific)
Subunits
Commentary
Organism
dimer
2 * 17649, unmodified recombinant enzyme, mass spectrometry, 2 * 17649, unmodified recombinant enzyme, mass spectrometry, 2 * 20440, His-tagged recombinant enzyme, SDS-PAGE
Rattus norvegicus
monomer
1 * 17649, unmodified recombinant enzyme, mass spectrometry, 1 * 19812, His-tagged recombinant enzyme, mass spectrometry, 1 * 20440, His-tagged recombinant enzyme, SDS-PAGE
Rattus norvegicus
More
at 0.003 mM the His-RCL is mostly monomeric, at 0.03 mM, His-RCL is mostly dimeric, at 0.01 mM His-RCL is at equilibrium between monomeric and dimeric states, overview
Rattus norvegicus
Temperature Optimum [°C] (protein specific)
Temperature Optimum [°C]
Temperature Optimum Maximum [°C]
Commentary
Organism
37
-
assay at
Rattus norvegicus
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
0.0066
-
dAMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.0066
-
dIMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.0178
-
dGMP
pH 7.5, 37°C, recombinant mutant E105A
Rattus norvegicus
0.0231
-
dCMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.0297
-
dGMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
0.158
-
dUMP
pH 7.5, 37°C, recombinant wild-type enzyme
Rattus norvegicus
pH Optimum (protein specific)
pH Optimum Minimum
pH Optimum Maximum
Commentary
Organism
6
-
-
Rattus norvegicus
pH Range (protein specific)
pH Minimum
pH Maximum
Commentary
Organism
5
8
50% of maximal activity at pH 7.0 with substrate dCMP, 20% with dGMP, 10% of maximal activity at pH 8.0 with both substrates
Rattus norvegicus
Other publictions for EC 2.4.2.6
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)
736575
Britos
-
Biotransformation of halogenat ...
Lactobacillus animalis
J. Fluor. Chem.
186
91-96
2016
-
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1
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1
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1
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-
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-
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-
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-
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-
736936
Vichier-Guerre
Expedient and generic synthesi ...
Lactobacillus leichmannii
Org. Biomol. Chem.
14
3638-3653
2016
-
-
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-
-
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-
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-
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2
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24
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24
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-
736846
Fresco-Taboada
Nucleoside 2'-deoxyribosyltran ...
Bacillus psychrosaccharolyticus, Bacillus psychrosaccharolyticus CECT 4074
Molecules
19
11231-11249
2014
-
-
1
-
-
1
1
-
-
1
2
2
-
5
-
-
1
-
-
-
-
-
10
1
1
-
1
-
1
-
1
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1
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1
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-
1
-
1
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1
2
2
-
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1
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-
10
1
1
-
1
-
1
-
1
1
-
-
-
-
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-
737137
Ye
Ethenoguanines undergo glycosy ...
Lactobacillus fermentum
PLoS ONE
9
e115082
2014
-
-
1
-
-
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-
-
-
-
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5
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1
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2
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1
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1
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2
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722820
Kaminski
Phosphodeoxyribosyltransferase ...
Lactobacillus leichmannii
J. Biol. Chem.
288
6534-6541
2013
-
-
1
-
-
-
-
2
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2
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6
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2
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1
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2
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6
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2
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2
2
735536
Fresco-Taboada
New insights on nucleoside 2'- ...
Lactobacillus leichmannii, Lactococcus lactis
Appl. Microbiol. Biotechnol.
97
3773-3785
2013
-
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2
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2
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6
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2
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6
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736587
Fernandez-Lucas
Magnetic chitosan beads for co ...
Lactobacillus reuteri
J. Ind. Microbiol. Biotechnol.
40
955-966
2013
-
-
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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1
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1
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1
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-
-
-
-
-
-
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-
721851
Fernandez-Lucas
One-step enzymatic synthesis o ...
Lactobacillus reuteri
Biores. Technol.
115
63-69
2012
-
1
-
-
-
-
-
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6
2
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1
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6
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721371
Fernandez-Lucas
Enzymatic synthesis of nucleos ...
Lactobacillus reuteri
Appl. Microbiol. Biotechnol.
91
317-327
2011
-
1
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2
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14
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1
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1
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1
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14
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1
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1
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722294
Lin
Subcellular localization of N- ...
Lactobacillus fermentum, Lactobacillus fermentum CGMCC 1.2133
FEMS Microbiol. Lett.
323
132-141
2011
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1
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4
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2
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3
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1
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1
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4
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2
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2
1
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721340
Fernandez-Lucas
Lactobacillus reuteri 2-deoxyr ...
Lactobacillus reuteri
Appl. Environ. Microbiol.
76
1462-1470
2010
1
-
1
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-
1
2
-
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2
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Cardinaud
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Cardinaud
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