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Information on EC 3.1.3.34 - deoxynucleotide 3'-phosphatase for references in articles please use BRENDA:EC3.1.3.34
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IUBMB Comments Also catalyses the selective removal of 3'-phosphate groups from DNA and oligodeoxyribonucleotides. Induced in Escherichia coli by T-even phages.
The enzyme appears in viruses and cellular organisms
Reaction Schemes
a 2'-deoxyribonucleoside 3'-phosphate
+
=
+
Synonyms
3'-deoxynucleotidase, cdN, mdN, nucleotidase, 3'-deoxyribo,
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3'-deoxynucleotidase
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nucleotidase, 3'-deoxyribo
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cdN
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a 2'-deoxyribonucleoside 3'-phosphate + H2O = a 2'-deoxyribonucleoside + phosphate
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-
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hydrolysis of phosphoric ester
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deoxyribonucleotide 3'-phosphohydrolase
Also catalyses the selective removal of 3'-phosphate groups from DNA and oligodeoxyribonucleotides. Induced in Escherichia coli by T-even phages.
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(E)-5-(2-bromovinyl)-2'-deoxyuridine 5'-phosphate + H2O
(E)-5-(2-bromovinyl)-2'-deoxyuridine + phosphate
-
-
-
-
?
2'-deoxyuridine 5'-phosphate + H2O
2'-deoxyuridine + phosphate
-
-
-
-
?
3'-azido-2',3'-dideoxythymidine 5'-phosphate + H2O
3'-azido-2',3'-dideoxythymidine + phosphate
-
-
-
-
?
3'-dAMP + H2O
deoxyadenosine + phosphate
-
-
-
?
3'-dGMP + H2O
2'-deoxyguanosine + phosphate
-
-
-
?
3'-dGMP + H2O
deoxyguanosine + phosphate
-
-
-
?
3'-dUMP + H2O
2'-deoxyguanosine + phosphate
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-
-
?
deoxynucleoside 3'-phosphate + H2O
deoxynucleoside + phosphate
dTMP + H2O
thymidine + phosphate
pTp + H2O
pT + phosphate
-
-
-
?
thymidine 3'-monophosphate + H2O
thymidine + phosphate
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-
-
?
additional information
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cdN has higher activity for purine nucleotides than does mdN, active site residues Leu45 and Tyr65 in cdN form a more favorable binding surface for purine nucleotides than the corresponding Trp75 and Trp76 in mdN
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deoxynucleoside 3'-phosphate + H2O
deoxynucleoside + phosphate
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deoxynucleoside 3'-phosphate + H2O
deoxynucleoside + phosphate
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-
-
-
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deoxynucleoside 3'-phosphate + H2O
deoxynucleoside + phosphate
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-
-
-
-
dTMP + H2O
thymidine + phosphate
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-
-
?
dTMP + H2O
thymidine + phosphate
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-
-
?
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deoxynucleoside 3'-phosphate + H2O
deoxynucleoside + phosphate
deoxynucleoside 3'-phosphate + H2O
deoxynucleoside + phosphate
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-
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deoxynucleoside 3'-phosphate + H2O
deoxynucleoside + phosphate
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deoxynucleoside 3'-phosphate + H2O
deoxynucleoside + phosphate
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-
-
-
-
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additional information
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effect of divalent cations alone or in combination
Mg2+
-
required for maximal activity
Mg2+
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required for maximal activity
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dGMP
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competitive to dTMP dephosphorylation
p-hydroxymercuribenzoate
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-
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5.7
deoxythymidine 5'-phosphate
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-
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5.6 - 6
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sodium succinate buffer
5.8 - 6.2
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Tris-maleate buffer
6 - 6.4
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sodium cacodylate buffer
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37
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assay at
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brenda
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induced by bacteriophages /T4am82
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Uniprot
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KIPN_BPT4
301
0
34620
Swiss-Prot
NT5C_MOUSE
200
0
23076
Swiss-Prot
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by hanging drop vapor diffusion method, cdN in complex with 2'deoxyuridine 5'-phosphate to 1.2 A resolution, space group P1, mutant of mdN in complex with the nucleotide analogues 3'-azido-2',3'-dideoxythymidine 5'-phosphate to 1.8 A resolution, space group P43212, and in complex with (E)-5-(2-bromovinyl)-2'deoxyuridine 5'-phosphate to 1.95 A resolution, space group P432132
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by hanging drop vapor diffusion method, D12N mutant in complex with 3'-dUMP to 1.9 A resolution, space group P62, and in complex with 3'-dGMP to 2.0 A resolution, space group P62
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D41N
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mutant of mdN, inactive
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-15°C, 6 months, glycerol, less than 10% loss of activity
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4°C, pH 8.0, 2 mM dithiothreitol, at least 1 week without loss of activity
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liquid N2, as precipitate in 80% ammonium sulfate, 2 mM dithiothreitol, no inactivation after 1 year
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D12N mutant expressed in the Escherichia coli Rosetta strain
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drug development
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introduction of substituents in the 3'-position may result in nucleoside analogues with increased resistance to dephosphorylation, design of drugs that are less prone to inactivation by the deoxyribonucleotidases
drug development
introduction of substituents in the 3'-position may result in nucleoside analogues with increased resistance to dephosphorylation, design of drugs that are less prone to inactivation by the deoxyribonucleotidases
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Becker, A.; Hurwitz, J.
The enzymatic cleavage of phosphate termini from polynucleotides
J. Biol. Chem.
242
936-950
1967
Escherichia coli
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Richardson, C.C.
Enzymes in DNA metabolism
Annu. Rev. Biochem.
38
795-840
1969
Escherichia coli
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Magnusson, G.
Deoxyribonucleotide phosphatase from rat liver and cultured mouse fibroblasts
Eur. J. Biochem.
20
225-230
1971
Mus musculus, Rattus norvegicus
brenda
Wallden, K.; Rinaldo-Matthis, A.; Ruzzenente, B.; Rampazzo, C.; Bianchi, V.; Nordlund, P.
Crystal structures of human and murine deoxyribonucleotidases: Insights into recognition of substrates and nucleotide analogues
Biochemistry
46
13809-13818
2007
Homo sapiens, Mus musculus (Q9JM14)
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