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Literature summary for 3.6.1.56 extracted from

  • Kimura, Y.; Kajimoto, S.; Yamamoto, Y.; Tanaka, N.
    Enzymatic characteristics of Nudix hydrolase 2 (Nud2), an 8-oxo-dGTP hydrolase from Myxococcus xanthus (2020), J. Gen. Appl. Microbiol., 66, 46-50 .
    View publication on PubMed
Search for more literature for 3.6.1.56

Protein Variants

Protein Variants Comment Organism
A84G the mutant shows about 70% of wild type activity Myxococcus xanthus
A84G/G90E the mutant shows about 110% of wild type activity Myxococcus xanthus
G90E the mutant shows about 130% of wild type activity Myxococcus xanthus

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
0.025
-
 2-hydroxy-dATP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.027
-
 8-oxo-dGTP in the presence of 0.25 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.027
-
 8-oxo-dGDP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.03
-
 8-oxo-dATP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.046
-
 dGTP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.134
-
 dGDP in the presence of 5 mM Mg2+, at pH 8.0 and 37°C Myxococcus xanthus
0.298
-
 dATP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.319
-
 GDP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.385
-
 Ap4A in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.447
-
 dADP in the presence of 5 mM Mg2+, at pH 8.0 and 37°C Myxococcus xanthus
0.455
-
 ATP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.598
-
 GTP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
1.173
-
 ADP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus

Metals/Ions

Metals/Ions Comment Organism Structure
Co2+ Co2+ (5 mM) stimulates most enzyme hydrolase activities, with the exception of 8-oxo-dATP and Ap4A Myxococcus xanthus
Mg2+ 5 mm Mg2+ is not effective in stimulating enzyme-mediated 8-oxo-dATP, ATP, and Ap4A hydrolysis, however, 5 mM Mg2+ is the most effective in hydrolysing dADP and dGDP Myxococcus xanthus
Mn2+ most effective cofactor. The optimal concentrations of Mn2+ for enzyme activity toward 8-oxo-dGTP and dGTP are 0.25 mM and 0.75 mM, respectively Myxococcus xanthus

Organism

Organism UniProt Comment Textmining
Myxococcus xanthus
-
-
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2-hydroxy-dATP + H2O
-
 Myxococcus xanthus 2-hydroxy-dAMP + diphosphate
-
 ?
8-oxo-dATP + H2O
-
 Myxococcus xanthus 8-oxo-dAMP + diphosphate
-
 ?
8-oxo-dGDP + H2O
-
 Myxococcus xanthus 8-oxo-dGMP + phosphate
-
 ?
8-oxo-dGTP + H2O highest specific activity toward 8-oxo-dGTP Myxococcus xanthus 8-oxo-dGMP + diphosphate
-
 ?
ADP + H2O
-
 Myxococcus xanthus AMP + phosphate
-
 ?
Ap4A + H2O
-
 Myxococcus xanthus AMP + ?
-
 ?
ATP + H2O
-
 Myxococcus xanthus AMP + diphosphate
-
 ?
dADP + H2O
-
 Myxococcus xanthus dAMP + phosphate
-
 ?
dATP + H2O
-
 Myxococcus xanthus dAMP + diphosphate
-
 ?
dGDP + H2O
-
 Myxococcus xanthus dGMP + phosphate
-
 ?
dGTP + H2O
-
 Myxococcus xanthus dGMP + diphosphate
-
 ?
GDP + H2O
-
 Myxococcus xanthus GMP + phosphate
-
 ?
GTP + H2O
-
 Myxococcus xanthus GMP + diphosphate
-
 ?

Synonyms

Synonyms Comment Organism
8-oxo-dGTP hydrolase
-
 Myxococcus xanthus
Nud2
-
 Myxococcus xanthus
Nudix hydrolase 2
-
 Myxococcus xanthus

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
0.097
-
 2-hydroxy-dATP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.102
-
 ADP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.103
-
 8-oxo-dATP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.103
-
 Ap4A in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.128
-
 dGDP in the presence of 5 mM Mg2+, at pH 8.0 and 37°C Myxococcus xanthus
0.143
-
 dADP in the presence of 5 mM Mg2+, at pH 8.0 and 37°C Myxococcus xanthus
0.15
-
 dATP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.158
-
 ATP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.187
-
 GDP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.273
-
 8-oxo-dGDP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.308
-
 dGTP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.338
-
 GTP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
1.13
-
 8-oxo-dGTP in the presence of 0.25 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
0.09
-
 ADP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.27
-
 Ap4A in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.6
-
 GTP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
0.95
-
 dGDP in the presence of 5 mM Mg2+, at pH 8.0 and 37°C Myxococcus xanthus
3.2
-
 dADP in the presence of 5 mM Mg2+, at pH 8.0 and 37°C Myxococcus xanthus
3.5
-
 8-oxo-dATP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
3.5
-
 ATP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
3.8
-
 2-hydroxy-dATP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
5
-
 dATP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
5.8
-
 GDP in the presence of 5 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
6.7
-
 dGTP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
10.2
-
 8-oxo-dGDP in the presence of 1 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus
41.7
-
 8-oxo-dGTP in the presence of 0.25 mM Mn2+, at pH 8.0 and 37°C Myxococcus xanthus