3.1.21.3: type I site-specific deoxyribonuclease
This is an abbreviated version!
For detailed information about type I site-specific deoxyribonuclease, go to the full flat file.
Word Map on EC 3.1.21.3
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3.1.21.3
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methyltransferase
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methylase
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phage
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endonucleases
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mtases
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bacteriophage
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duplex
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unmethylated
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isoschizomer
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prophage
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exonuclease
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dna-methyltransferase
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enase
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recbcd
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n6-adenine
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ssoii
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hemimethylated
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clpxp
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n6-methyladenine
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biotechnology
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medicine
- 3.1.21.3
- methyltransferase
-
methylase
- phage
- endonucleases
- mtases
- bacteriophage
- duplex
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unmethylated
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isoschizomer
- prophage
-
exonuclease
- dna-methyltransferase
-
enase
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recbcd
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n6-adenine
- ssoii
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hemimethylated
- clpxp
- n6-methyladenine
- biotechnology
- medicine
Reaction
endonucleolytic cleavage of DNA to give random double-stranded fragments with terminal 5'-phosphates; ATP is simultaneously hydrolysed =
Synonyms
adenosine triphosphate-dependent deoxyribonuclease, ATP-dependent deoxyribonuclease, ATP-dependent DNase, BsaHI restriction-modification system, C.PvuII, CfrAI, deoxyribonuclease (ATP- and S-adenosyl-L-methionine dependent), deoxyribonuclease (ATP-dependent), DNase, EC 3.1.23, EC 3.1.24, EC 3.1.4.33, Eco377I, Eco394I, Eco585I, Eco646I, Eco777I, Eco826I, Eco851I, Eco912I, EcoA0ORF42P, EcoAI, EcoAO83I, EcoB, EcoBI, EcoDI, EcoDXXI, EcoEI, EcoGIV, EcoK, EcoKI, EcoKI type I DNA restriction enzyme, EcoKI type I restriction-modification system, EcoprrI, EcoR, EcoR124, EcoR124/3I, EcoR124I, EcoR124II, EcoRII modification enzyme, EcoRII RM gene complex, EcoRII system, endodeoxyribonuclease, Esp1396I, exodeoxyribonuclease, H91_orf206, H91_orf376, HpyAXII restriction-modification system, HsdM, HsdR, hsdS, KpnBI, More, MpnORFDAP, MpnORFDBP, nuclease, deoxyribo-, nuclease, deoxyribo-, ATP-dependent, PspGI endonuclease, PspGI restriction-modification system, R. BsaHI, R.EcoAI, R.EcoEI, R.EcoKI, R.EcoR124I restriction endonuclease, R.EcoR124II, R.EcoR124INT, R.HpyAXII, R.PspGI, REase, RecoK, restriction-modification system, Sau1, Sau1 type I restriction-modification system, Sau1 Type I RM system, SauMW2I, SauMW2II, SauN315I, SauN315II, StyLTIII, StySBI, StySEAI, StySGI, StySJI, StySKI, StySPI, StySQI, type I R-M enzyme, type I R-M system, type I restriction enzyme, type I restriction modification enzyme, type I restriction-modification enzyme, type I restriction-modification system, type I restriction-modification system EcoR124I, type IB restriction enzyme, type II R-M system, type II restriction-modification system
ECTree
3.1.21.3 type I site-specific deoxyribonucleaseAdvanced search results
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results (Substrates Products
Substrates Products on EC 3.1.21.3 - type I site-specific deoxyribonuclease
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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
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + phosphate
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-
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?
plasmid pTK-neo + ATP
?
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the enzyme recognises the symmetrical sequence GAAN7TTC at position 2535 bp
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-
?
plasmid pUC19 + ATP
?
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the enzyme recognises the symmetrical sequence GAAN7TTC at positions 1126 bp and 2294 bp
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-
?
DNA + H2O
?
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EcoR124I couples ATP hydrolysis to bidirectional DNA translocation
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-
?
DNA + H2O
?
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the enzyme must overcome a similar slow step before translocation reaches a steady state
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-
?
DNA + H2O
?
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HsdR subunit can produce only a single cleavage of the phosphodiester backbone of the DNA but can cooperate with another HsdR subunit to produce full DNA cleavage, producing DNA with overhanging ends of single-stranded DNA. On a single-site plasmid, cleavage requires the association of HsdR, from solution, to the cleavage complex in order to produce double-strand cleavage
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-
?
DNA + H2O
?
-
R.HpyAXII effectively restricts chromosomal DNA during natural transformation
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-
?
DNA + H2O
?
-
R.HpyAXII effectively restricts chromosomal DNA during natural transformation
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-
?
DNA + H2O
?
-
the PspGI restriction-modification system recognizes the sequence CCWGG. R.PspGI cuts DNA before the first C in the cognate sequence and M.PspGI methylates N4 of one of the cytosines in the sequence. R.PspGI flips both bases in the central base pair out of the duplex
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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-
-
-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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overview of recognition sequences
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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-
-
-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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-
-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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overview of recognition sequences
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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the wild type enzyme EcoK cleaves circular DNA. Only one endonuclease molecule is required per cleavage event. Cleavage of linear DNA may require a second endonuclease molecule
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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the enzyme is both a restriction endonuclease and a modification methylase. Hemi-methylated DNA is the preferred substrate for methylation
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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the site of restriction cleavage is random, occuring between 1 and 5 kb from the recognition site. The modification methylase acts directly at the recognition sequence
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?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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the modification methylase binds sequence specifically to DNA and protects a 25bp fragment containing its cognate recognition sequence from digestion by exonuclease III, specific adenine on each strand of DNA is the site of methylation
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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supercoiled with one or two SR124I recognition sites is cleaved by the same mechanism. Nicked-circle DNA is an intermediate of the cleavage reaction
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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EcoAI preferentially generates 3'-overhangs of 2-3 nt. Displays some preference for the formation of 5'-overhangs of a length of 6-7 and 3-5 nt, respectively. type I restriction enzymes require two restriction subunits to introduce DNA double-stran breaks, each providing one catalytic center for phosphodiester bond hydrolysis
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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EcoKI displays some preference for the formation of 5'-overhangs of a length of 6-7 and 3-5 nt, respectively. Type I restriction enzymes require two restriction subunits to introduce DNA double-stran breaks, each providing one catalytic center for phosphodiester bond hydrolysis
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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EcoR124I displays some preference for the formation of 5'-overhangs of a length of 6-7 and 3-5 nt, respectively. Type I restriction enzymes require two restriction subunits to introduce DNA double-stran breaks, each providing one catalytic center for phosphodiester bond hydrolysis
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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initiation of translocation by type I restriction-modification enzymes is associated with a short DNA extrusion
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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the two motor subunits of Eco124I are independent motors that translocate along the helical pitch of the DNA. Dynamic termination and reinitiation of translocation activity is governed by disassembly and reassembly of the enzyme
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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type I enzymes recognize bipartite DNA sequences comprising two half-sequences separated by a gap, for example, AACNNNNNNGTGC (AAC N6 GTGC) where N=any base
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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-
-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
-
-
-
-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
-
-
-
-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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restricts unmodified phage DNA
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-
?
duplex DNA + ATP
double-stranded DNA fragments with terminal 5'-phosphate + ADP + inorganic phosphate
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restricts unmodified phage DNA
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-
?
plasmid DNA + H2O
?
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EcoKI prefers to have a partially filled DNA-binding site rather than one fully occupied by non-specific DNA. Dimerization of EcoKI does not occur before DNA binding and takes place on specific sites before any looping. Dimerization occurs before the two specific sites are bought together. Looping initially occurs between a target site and a non-specific region of DNA
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-
?
plasmid DNA + H2O
?
-
R.HpyAXII effectively restricts unmethylated plasmid during natural transformation
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-
?
plasmid DNA + H2O
?
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R.HpyAXII effectively restricts unmethylated plasmid during natural transformation
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-
?
synthetic oligonucleotide + ATP
?
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recognition sequence: CA(underlined)C(5N)T(underlined)GGC
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-
?
synthetic oligonucleotide + ATP
?
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recognition sequence: GA(underlined)C(5N)RT(underlined)AAY
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-
?
synthetic oligonucleotide + ATP
?
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recognition sequence: GCA(underlined)(6N)CT(underlined)GA
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-
?
synthetic oligonucleotide + ATP
?
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recognition sequence: GTCA(underlined)(6N)T(underlined)GAY
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-
?
additional information
?
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the database REBASE contains information about recognition sites and cleavage sites
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-
?
additional information
?
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a bacterial population may switch the recognition sequence of its type I restriction-modification system by single recombination events and thus is able to maintain a prokaryotic analogue of the immune system of variable specificity
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-
?
additional information
?
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enzyme restricts the exchange of genetic material between bacteria of different strains or species
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-
?
additional information
?
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C.PvuII binding to operator left activates transcription. Binding preference for operator left over operator right. All four bases of the inter-operator TGTA spacer are required for C.PvuII-dependent activation
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-
?
additional information
?
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enzyme restricts the exchange of genetic material between bacteria of different strains or species
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-
?
additional information
?
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restricts unmodified phage DNA after both infection and transfection
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-
?
additional information
?
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isoform Sau1 is the major mechanism for blocking transfer of resistance genes and other mobile genetic elements into Staphylococcus aureus isolates from other species, as well as for controlling the spread of resistance genes between isolates of different Staphylococcus aureus lineages
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-
?
additional information
?
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determination of target sequences recognized by the Sau1 Type I RM systems present in a wide range of the most prevalent Staphylococcus aureus lineages and assigned the sequences recognized to particular target recognition domains within the RM enzymes
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-
?
additional information
?
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restricts unmodified phage DNA after both infection and transfection
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-
?
additional information
?
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basal transcription from promoter esp1396ICR results in gradual accumulation of C.Esp1396I, which upon dimerization binds to a single site in promoter esp1396IM, preventing further transcription from this promoter. Further accumulation of C.Esp1396I results in activation and then gradual repression of promoter esp1396ICR
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-
?
