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Information on EC 2.7.1.78 - polynucleotide 5'-hydroxyl-kinase
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2.7.1.78 polynucleotide 5'-hydroxyl-kinaseIUBMB Comments
Also acts on 5'-dephospho-RNA 3'-mononucleotides.
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Word Map
- 2.7.1.78
- termini
- strand
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single-stranded
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gamma-32patp
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exonuclease
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32p-postlabeling
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5\'-hydroxyl
- bacteriophage
- phosphodiesterase
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3'-phosphatase
- nick
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32p-labeled
- duplex
- 3'-monophosphate
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5'-phosphorylated
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5'-terminal
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postlabeling
- dsdna
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anticodon
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5\'-termini
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klenow
- xrcc4
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dinucleoside
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micrococcal
- 3',5'-bisphosphate
- synthesis
- primase
-
carcinogen-dna
-
phosphotriester
-
t4-infected
- oligoribonucleotide
- analysis
- biotechnology
- medicine
The enzyme appears in viruses and cellular organisms
Synonyms
pnk, polynucleotide kinase, t4 polynucleotide kinase, t4 pnk, hd-pnk, dna kinase, hpnkp, 5'-oh polynucleotide kinase, 5'-hydroxyl polynucleotide kinase, phoclp1, 
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SYNONYM 
ORGANISM
UNIPROT
COMMENTARY 
LITERATURE
5'-hydroxyl polynucleotide kinase
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5'-hydroxyl polyribonucleotide kinase
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5'-hydroxyl RNA kinase
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5'-OH polynucleotide kinase
ATP:5'-dephosphopolynucleotide 5'-phosphatase
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CLP1
DNA 5'-hydroxyl kinase
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DNA kinase
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HD-Pnk
kinase (phosphorylating), polynucleotide 5'-hydroxyl
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PNK
PNKP
polynucleotide 5'-hydroxyl kinase (phosphorylating)
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polynucleotide 5'-hydroxyl-kinase
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polynucleotide kinase
polynucleotide kinase-phosphatase
polynucleotide kinase/phosphatase
additional information
HD-Pnk
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the enzyme consists of an N-terminal 2',3'-phosphoesterase module of the HD domain family fused to a C-terminal polynucleotide kinase module
HD-Pnk
Runella slithyformis ATCC 49304
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the enzyme consists of an N-terminal 2',3'-phosphoesterase module of the HD domain family fused to a C-terminal polynucleotide kinase module
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PNK
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PNK
Tequatrovirus T4
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PNK
Tequatrovirus T4 K10
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PNKP
the enzyme is composed of three catalytic modules: an N-terminal 5'-OH polynucleotide kinase, a central 2',3' phosphatase, and a C-terminal ligase polynucleotide kinase
polynucleotide kinase
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polynucleotide kinase
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bifunctional enzyme possessing a 5'-DNA kinase activity and a 3'-phosphatase activity
polynucleotide kinase
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major cellular 3' DNA phosphatase which also possesses a 5' kinase activity
polynucleotide kinase
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the phosphatase activity of the purified enzyme is significantly more active than its kinase activity
polynucleotide kinase
Tequatrovirus T4
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polynucleotide kinase-phosphatase
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catalyzes ATP-dependent phosphorylation of 5'-OH termini of DNA or RNA polynucleotides and Ni2+/Mn2+-dependent dephosphorylation of 2',3' cyclic phosphate, 2'-phosphate, and 3'-phosphate ribonucleotides
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REACTION
REACTION DIAGRAM
COMMENTARY
ORGANISM
UNIPROT
LITERATURE
ATP + 5'-dephospho-DNA = ADP + 5'-phospho-DNA
also acts on 5'-dephospho-RNA 3'-mononucleotides
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-
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ATP + 5'-dephospho-DNA = ADP + 5'-phospho-DNA
structure of the active sites for 5'-polynucleotide kinase and 3'phosphatase activity of the bifunctional enzyme, substrate binding mechanism
Tequatrovirus T4
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ATP + 5'-dephospho-DNA = ADP + 5'-phospho-DNA
5 amino acids, Lys15, Ser116, Asp35, Arg38, and Arg126, comprise the 5'-kinase active site, structure-activity relationships
Tequatrovirus T4
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ATP + 5'-dephospho-DNA = ADP + 5'-phospho-DNA
random order sequential mechanism
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ATP + 5'-dephospho-DNA = ADP + 5'-phospho-DNA
mechanism involves a ternary complex of enzyme, ATP and DNA
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ATP + 5'-dephospho-DNA = ADP + 5'-phospho-DNA
Asp38, as general base, activates the polynucleotide 5'-OH for its nucleophilic attack on the gamma phosphorus and Lys21 and Mg2+ stabilize the transition state, catalytic mechanism, overview
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REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY
LITERATURE
phopho group transfer
phospho group transfer
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SYSTEMATIC NAME
IUBMB Comments
ATP:5'-dephosphopolynucleotide 5'-phosphotransferase
Also acts on 5'-dephospho-RNA 3'-mononucleotides.
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CAS REGISTRY NUMBER
COMMENTARY
37211-65-7
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SUBSTRATE
PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate)
(Substrate)
LITERATURE
(Substrate)
(Substrate)
COMMENTARY
(Product)
(Product)
LITERATURE
(Product)
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
r=reversible
ir=irreversible
?=not specified
ATP + 3'-carboxyfluorescein-labeled DNA/complementary DNA hybrid
?
Tequatrovirus T4
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-
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?
ATP + 5'-CGAGGCTGCACT-BHQ2-3'
ADP + 5'-phospho-CGAGGCTGCACT-BHQ2-3'
Tequatrovirus T4
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-
-
-
?
ATP + 5'-dephospho-GAAAA-RNA
ADP + 5'-phospho-GAAAA-RNA
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-
-
?
ATP + 5'-OH RNA
ADP + 5'-phospho-RNA
preference for RNA substrates
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r
ATP + deoxynucleoside 3'-phosphate
ADP + deoxynucleoside 3',5'-diphosphate
Tequatrovirus T4
-
-
-
-
?
beta,gamma-imidoadenylyl 5'-triphosphate + 5'-phospho-DNA
beta,gamma-imidoadenylyl 5'-tetraphosphate + 5'-dephospho-DNA
GTP + 5'-CTAGAGCTACAATTGCGACCG-3'
GDP + 5'-phospho-CTAGAGCTACAATTGCGACCG-3'
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-
-
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?
UTP + 5'-CTAGAGCTACAATTGCGACCG-3'
UDP + 5'-phospho-CTAGAGCTACAATTGCGACCG-3'
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-
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?
ATP + 2'(3')-ribonucleotides
?
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no activity with 2'(3')-AMP and 2'(3')-CMP
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?
ATP + 5'-CTAGAGCTACAATTGCGACCG-3'
ADP + 5'-phospho-CTAGAGCTACAATTGCGACCG-3'
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?
ATP + 5'-CTAGAGCTACAATTGCGACCG-3'
ADP + 5'-phospho-CTAGAGCTACAATTGCGACCG-3'
Runella slithyformis ATCC 49304
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
substrate is a synthetic 36-mer 5'-OH DNA oligonucleotide d(CCTGTTCTTATTGGCCTCCTGGCATACCTTTTCCGG)
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
the enzyme makes hydrogen bonds to the ribose 2'-hydroxyls of the 5'-terminal nucleoside, via Gln51, and the penultimate nucleoside, via Gln83
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-
?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
Acetivibrio thermocellus DSM 1237
the enzyme makes hydrogen bonds to the ribose 2'-hydroxyls of the 5'-terminal nucleoside, via Gln51, and the penultimate nucleoside, via Gln83
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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minimal length of the substrate is 7-8 nucleotides, optimal size is more than 18 nucleotides in length
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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no preference for overhanging 5'-ends
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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micrococcal-nuclease-treated calf thymus DNA
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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involved in repair of DNA single strand breaks
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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micrococcal-nuclease-treated calf thymus DNA
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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-
-
-
?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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involved in repair of DNA single strand breaks
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-
?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
Kostyavirus CJW1
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37-mer oligodeoxyribonucleotide substrate
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r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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preference for recessed termini within duplex DNA
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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no preference for overhanging 5'-ends
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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involved in repair of chromosomal DNA strand breaks that arise continously, but at low frequency, and are potentially lethal
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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micrococcal-nuclease-treated calf thymus DNA is not effectively phosphorylated
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
Omegavirus omega
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37-mer oligodeoxyribonucleotide substrate
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r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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double stranded DNA
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?, r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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double stranded DNA
UDP, ADP, GDP and CDP support the reverse reaction
r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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minimal length of the substrate is 7-8 nucleotides, optimal size is more than 18 nucleotides in length
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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nuclease-treated calf thymus DNA
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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large DNA fragments released by nuclease treatment
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?, r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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large DNA fragments released by nuclease treatment
UDP, ADP, GDP and CDP support the reverse reaction
r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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single stranded DNA
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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single stranded DNA
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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single stranded DNA
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r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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single stranded DNA
UDP, ADP, GDP and CDP support the reverse reaction
r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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native and denatured DNA are substrates for the reverse reaction
reverse reaction is promoted by a variety of other nucleoside diphosphates but not by ATP
?, r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
-
native and denatured DNA are substrates for the reverse reaction
native and heat denatured DNA serve as substrates for the reverse reaction
?, r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
-
native and heat denatured DNA
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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native and heat denatured DNA
UDP, ADP, GDP and CDP support the reverse reaction
r
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
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acts both on single- and blunt end double-stranded DNA
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
Tequatrovirus T4
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-
-
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?
ATP + 5'-dephospho-DNA
ADP + 5'-phospho-DNA
Tequatrovirus T4
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double stranded DNA
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r