nt alwi endonuclease  (New England Biolabs)


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  • 91
    Name:
    Nt AlwI
    Description:
    Nt AlwI 500 units
    Catalog Number:
    r0627l
    Price:
    70
    Size:
    500 units
    Category:
    Restriction Enzymes
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    Structured Review

    New England Biolabs nt alwi endonuclease
    Nt AlwI
    Nt AlwI 500 units
    https://www.bioz.com/result/nt alwi endonuclease/product/New England Biolabs
    Average 91 stars, based on 5 article reviews
    Price from $9.99 to $1999.99
    nt alwi endonuclease - by Bioz Stars, 2020-07
    91/100 stars

    Images

    1) Product Images from "Dynamic structures of Bacillus subtilis RecN-DNA complexes"

    Article Title: Dynamic structures of Bacillus subtilis RecN-DNA complexes

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkm759

    RecN binding to nicked DNA. Nt.AlwI-treated EcoRV-linear DNA (150 nM in nt) and RecN (10 nM) were incubated for 10 min at 37°C. Reaction was fixed with 0.1 glutaraldehyde and deposited on freshly cut mica. ( A ) AFM images of Nt.AlwI-treated DNA–RecN complexes analysed. ( B ) Geometrical analyses of Nt.AlwI-treated DNA–RecN complexes. The length from the end of the substrate to DNA-bound RecN was measured and shown as a histogram in 250 bp bin. A schematic map of plasmid DNA with the target localization for Nt.AlwI endonuclease and relevant high dA + dT regions ( P lac , pUC ori and f1 ori ) are shown at the same scale of the histogram.
    Figure Legend Snippet: RecN binding to nicked DNA. Nt.AlwI-treated EcoRV-linear DNA (150 nM in nt) and RecN (10 nM) were incubated for 10 min at 37°C. Reaction was fixed with 0.1 glutaraldehyde and deposited on freshly cut mica. ( A ) AFM images of Nt.AlwI-treated DNA–RecN complexes analysed. ( B ) Geometrical analyses of Nt.AlwI-treated DNA–RecN complexes. The length from the end of the substrate to DNA-bound RecN was measured and shown as a histogram in 250 bp bin. A schematic map of plasmid DNA with the target localization for Nt.AlwI endonuclease and relevant high dA + dT regions ( P lac , pUC ori and f1 ori ) are shown at the same scale of the histogram.

    Techniques Used: Binding Assay, Incubation, Plasmid Preparation

    2) Product Images from "Synthesizing topological structures containing RNA"

    Article Title: Synthesizing topological structures containing RNA

    Journal: Nature Communications

    doi: 10.1038/ncomms14936

    Constructing ssRNA topological structures with the junction-based method. ( a ) Preparation of the ssRNA strand with uniform ends and proper end groups for the DNA-splinted RNA ligation. ( b ) Both the positive ( TK j ( + )) and negative ( TK j ( − )) RNA trefoil knots of the same sequence are constructed by configuring tensegrity triangles with different handedness. The same scaffolds (blue) are threaded by different staple sets (grey or purple) to form a 17-bp-edged right-handed tensegrity triangle for the positive trefoil knot, or a 14-bp-edged left-handed tensegrity triangle for the negative one, respectively. Each topology is designated by the Alexander–Briggs notation n i or , where n is the minimal number of nodes, C is the number of components (for links), and i distinguishes different topologies with the same n and C . ( c ) dPAGE analysis of TK j ( + ) (lanes 1 and 2), TK j ( − ) (lanes 3 and 4), and their circular ( C j , lanes 5 and 6) and linear ( L j , lanes 7 and 8) counterparts. Lanes 2, 4, 6 and 8 contain samples digested by RNase R. ( d ) The assembly complex for the hybrid BR contains tensegrity triangles of both handedness to generate three positive nodes plus three negative nodes. ( e ) Topological analyses of the hybrid BR. Lane 1, gel-purified BR; lanes 2–6, BR treated by RNase H, Nt.AlwI (for cleaving the red ring), Nt.BspQI (for cleaving the green ring), DNase I, and E. coli DNA Topo I; lanes 7 and 8, DNA and RNA references of the three individual components. During the purification of BR, the breaking down of the 95-nt circular RNA component is unavoidable, and a portion of BR falls apart as a result. The treatment of BR by RNase H, Nt.AlwI and Nt.BspQI is conducted in the presence of an assisting DNA strand complementary to the corresponding ssRNA or ssDNA ring. LX and CX represent X-nt linear and circular species, respectively. In all the gels, lane M contains the DNA size markers.
    Figure Legend Snippet: Constructing ssRNA topological structures with the junction-based method. ( a ) Preparation of the ssRNA strand with uniform ends and proper end groups for the DNA-splinted RNA ligation. ( b ) Both the positive ( TK j ( + )) and negative ( TK j ( − )) RNA trefoil knots of the same sequence are constructed by configuring tensegrity triangles with different handedness. The same scaffolds (blue) are threaded by different staple sets (grey or purple) to form a 17-bp-edged right-handed tensegrity triangle for the positive trefoil knot, or a 14-bp-edged left-handed tensegrity triangle for the negative one, respectively. Each topology is designated by the Alexander–Briggs notation n i or , where n is the minimal number of nodes, C is the number of components (for links), and i distinguishes different topologies with the same n and C . ( c ) dPAGE analysis of TK j ( + ) (lanes 1 and 2), TK j ( − ) (lanes 3 and 4), and their circular ( C j , lanes 5 and 6) and linear ( L j , lanes 7 and 8) counterparts. Lanes 2, 4, 6 and 8 contain samples digested by RNase R. ( d ) The assembly complex for the hybrid BR contains tensegrity triangles of both handedness to generate three positive nodes plus three negative nodes. ( e ) Topological analyses of the hybrid BR. Lane 1, gel-purified BR; lanes 2–6, BR treated by RNase H, Nt.AlwI (for cleaving the red ring), Nt.BspQI (for cleaving the green ring), DNase I, and E. coli DNA Topo I; lanes 7 and 8, DNA and RNA references of the three individual components. During the purification of BR, the breaking down of the 95-nt circular RNA component is unavoidable, and a portion of BR falls apart as a result. The treatment of BR by RNase H, Nt.AlwI and Nt.BspQI is conducted in the presence of an assisting DNA strand complementary to the corresponding ssRNA or ssDNA ring. LX and CX represent X-nt linear and circular species, respectively. In all the gels, lane M contains the DNA size markers.

    Techniques Used: Ligation, Sequencing, Construct, Purification

    3) Product Images from "Meiotic association between Spo11 regulated by Rec102, Rec104 and Rec114"

    Article Title: Meiotic association between Spo11 regulated by Rec102, Rec104 and Rec114

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkl1162

    Detection of SSBs in the GAL2 UAS region. ( A ) Detection of SSBs by S1 nuclease. Plugs containing genomic DNA from wild-type cells were directly equilibrated in restriction digestion buffer and treated with NcoI and XbaI. Genomic DNA recovered from the melted plugs was then incubated in the presence (lanes designated +) or absence (lanes designated −) of S1 nuclease. Numbers above the panels are culture time (hours) in SPM. The diagram is labeled as for Figure 5 . ( B ) Schematic diagram of SSB detection in rad50S strains using denaturing polyacrylamide gel. Nt.AlwI introduces an SSB into specific sequences of DNA (5′-GGATCNNNN/N-3′). The GAL2 promoter has the sequence only on the + strand. Probes A and B were labeled by multiple round primer extension in the presence of radio-labeled dCTP. ( C ) and ( D ) Detection of SSBs on the −/+ strand by using strand-specific probes. All strains are homozygous for the rad50S allele. After genomic DNA was prepared from the meiotic cells at the indicated times (hours), it was treated with AccI and BspHI. The right two lanes in each panel contain 5% DNA fragments, which were further digested with HhaI or Nt.AlwI. Strains used were YHS363, YHS397, YHS427 and YHS514.
    Figure Legend Snippet: Detection of SSBs in the GAL2 UAS region. ( A ) Detection of SSBs by S1 nuclease. Plugs containing genomic DNA from wild-type cells were directly equilibrated in restriction digestion buffer and treated with NcoI and XbaI. Genomic DNA recovered from the melted plugs was then incubated in the presence (lanes designated +) or absence (lanes designated −) of S1 nuclease. Numbers above the panels are culture time (hours) in SPM. The diagram is labeled as for Figure 5 . ( B ) Schematic diagram of SSB detection in rad50S strains using denaturing polyacrylamide gel. Nt.AlwI introduces an SSB into specific sequences of DNA (5′-GGATCNNNN/N-3′). The GAL2 promoter has the sequence only on the + strand. Probes A and B were labeled by multiple round primer extension in the presence of radio-labeled dCTP. ( C ) and ( D ) Detection of SSBs on the −/+ strand by using strand-specific probes. All strains are homozygous for the rad50S allele. After genomic DNA was prepared from the meiotic cells at the indicated times (hours), it was treated with AccI and BspHI. The right two lanes in each panel contain 5% DNA fragments, which were further digested with HhaI or Nt.AlwI. Strains used were YHS363, YHS397, YHS427 and YHS514.

    Techniques Used: Incubation, Labeling, Sequencing

    Related Articles

    other:

    Article Title: Remote control of DNA-acting enzymes by varying the Brownian dynamics of a distant DNA end
    Article Snippet: Reactions with vaccinia topo IB (Epicentre Biotechnologies), Nt.AlwI (New England Biolabs), and PvuII (Promega) were performed in a buffer containing 50 mM potassium glutamate, 10 mM Hepes (pH 7.5), 1 mM MgCl2 , and 1 mM DTT.

    Article Title: Synthesizing topological structures containing RNA
    Article Snippet: Digestion with various nucleases Various nucleases were used in this work, including Nt.AlwI (NEB), Nt.BspQI (NEB), RNase H (NEB), DNase I (NEB) and RNase R (Epicentre).

    Positive Control:

    Article Title: Meiotic association between Spo11 regulated by Rec102, Rec104 and Rec114
    Article Snippet: .. Nt.AlwI was used as a positive control for SSB detection. .. All samples were purified using a NucleoSpin Extract II kit (Macherey-Nagel) and suspended in TE and loading buffer (95% formamide, 10 mM EDTA, 0.1% xylene cyanol, 0.1% bromophenol blue).

    Plasmid Preparation:

    Article Title: Novel Method For Quantifying Radiation-Induced Single-Strand-Break Yields In Plasmid DNA Highlights Tenfold Discrepancy
    Article Snippet: .. Nicking endonucleases Nb.BsrDI, Nb.BtsI, Nt.BstNBI and Nt.AlwI (New England Biolabs, Beverly, MA) were used to create 3 HT-pUC19 (20 μg) plasmid DNA molecules with known number of SSBs (2, 3, 4 and 10, respectively). .. In essence, 3 HT-pUC19 (20 μg) plasmid SC DNA samples were each digested with 100 units (10 units/μl) of one of the above mentioned nicking endonucleases in 100 μl volume under appropriate conditions.

    Purification:

    Article Title: Meiotic association between Spo11 regulated by Rec102, Rec104 and Rec114
    Article Snippet: .. At the GAL2 locus, the purified genomic DNA was treated with AccI, BspHI, HhaI and Nt.AlwI (New England BioLabs) for several hours. .. Nt.AlwI was used as a positive control for SSB detection.

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  • 91
    New England Biolabs nt alwi endonuclease
    RecN binding to nicked DNA. <t>Nt.AlwI-treated</t> <t>EcoRV-linear</t> DNA (150 nM in nt) and RecN (10 nM) were incubated for 10 min at 37°C. Reaction was fixed with 0.1 glutaraldehyde and deposited on freshly cut mica. ( A ) AFM images of Nt.AlwI-treated DNA–RecN complexes analysed. ( B ) Geometrical analyses of Nt.AlwI-treated DNA–RecN complexes. The length from the end of the substrate to DNA-bound RecN was measured and shown as a histogram in 250 bp bin. A schematic map of plasmid DNA with the target localization for Nt.AlwI endonuclease and relevant high dA + dT regions ( P lac , pUC ori and f1 ori ) are shown at the same scale of the histogram.
    Nt Alwi Endonuclease, supplied by New England Biolabs, used in various techniques. Bioz Stars score: 91/100, based on 5 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/result/nt alwi endonuclease/product/New England Biolabs
    Average 91 stars, based on 5 article reviews
    Price from $9.99 to $1999.99
    nt alwi endonuclease - by Bioz Stars, 2020-07
    91/100 stars
      Buy from Supplier

    Image Search Results


    RecN binding to nicked DNA. Nt.AlwI-treated EcoRV-linear DNA (150 nM in nt) and RecN (10 nM) were incubated for 10 min at 37°C. Reaction was fixed with 0.1 glutaraldehyde and deposited on freshly cut mica. ( A ) AFM images of Nt.AlwI-treated DNA–RecN complexes analysed. ( B ) Geometrical analyses of Nt.AlwI-treated DNA–RecN complexes. The length from the end of the substrate to DNA-bound RecN was measured and shown as a histogram in 250 bp bin. A schematic map of plasmid DNA with the target localization for Nt.AlwI endonuclease and relevant high dA + dT regions ( P lac , pUC ori and f1 ori ) are shown at the same scale of the histogram.

    Journal: Nucleic Acids Research

    Article Title: Dynamic structures of Bacillus subtilis RecN-DNA complexes

    doi: 10.1093/nar/gkm759

    Figure Lengend Snippet: RecN binding to nicked DNA. Nt.AlwI-treated EcoRV-linear DNA (150 nM in nt) and RecN (10 nM) were incubated for 10 min at 37°C. Reaction was fixed with 0.1 glutaraldehyde and deposited on freshly cut mica. ( A ) AFM images of Nt.AlwI-treated DNA–RecN complexes analysed. ( B ) Geometrical analyses of Nt.AlwI-treated DNA–RecN complexes. The length from the end of the substrate to DNA-bound RecN was measured and shown as a histogram in 250 bp bin. A schematic map of plasmid DNA with the target localization for Nt.AlwI endonuclease and relevant high dA + dT regions ( P lac , pUC ori and f1 ori ) are shown at the same scale of the histogram.

    Article Snippet: EcoRV-cleaved pBluescript was exposed to Nt.AlwI endonuclease (NEB) to obtain blunt-ended DNA molecules with internal single-strand nicks.

    Techniques: Binding Assay, Incubation, Plasmid Preparation

    Constructing ssRNA topological structures with the junction-based method. ( a ) Preparation of the ssRNA strand with uniform ends and proper end groups for the DNA-splinted RNA ligation. ( b ) Both the positive ( TK j ( + )) and negative ( TK j ( − )) RNA trefoil knots of the same sequence are constructed by configuring tensegrity triangles with different handedness. The same scaffolds (blue) are threaded by different staple sets (grey or purple) to form a 17-bp-edged right-handed tensegrity triangle for the positive trefoil knot, or a 14-bp-edged left-handed tensegrity triangle for the negative one, respectively. Each topology is designated by the Alexander–Briggs notation n i or , where n is the minimal number of nodes, C is the number of components (for links), and i distinguishes different topologies with the same n and C . ( c ) dPAGE analysis of TK j ( + ) (lanes 1 and 2), TK j ( − ) (lanes 3 and 4), and their circular ( C j , lanes 5 and 6) and linear ( L j , lanes 7 and 8) counterparts. Lanes 2, 4, 6 and 8 contain samples digested by RNase R. ( d ) The assembly complex for the hybrid BR contains tensegrity triangles of both handedness to generate three positive nodes plus three negative nodes. ( e ) Topological analyses of the hybrid BR. Lane 1, gel-purified BR; lanes 2–6, BR treated by RNase H, Nt.AlwI (for cleaving the red ring), Nt.BspQI (for cleaving the green ring), DNase I, and E. coli DNA Topo I; lanes 7 and 8, DNA and RNA references of the three individual components. During the purification of BR, the breaking down of the 95-nt circular RNA component is unavoidable, and a portion of BR falls apart as a result. The treatment of BR by RNase H, Nt.AlwI and Nt.BspQI is conducted in the presence of an assisting DNA strand complementary to the corresponding ssRNA or ssDNA ring. LX and CX represent X-nt linear and circular species, respectively. In all the gels, lane M contains the DNA size markers.

    Journal: Nature Communications

    Article Title: Synthesizing topological structures containing RNA

    doi: 10.1038/ncomms14936

    Figure Lengend Snippet: Constructing ssRNA topological structures with the junction-based method. ( a ) Preparation of the ssRNA strand with uniform ends and proper end groups for the DNA-splinted RNA ligation. ( b ) Both the positive ( TK j ( + )) and negative ( TK j ( − )) RNA trefoil knots of the same sequence are constructed by configuring tensegrity triangles with different handedness. The same scaffolds (blue) are threaded by different staple sets (grey or purple) to form a 17-bp-edged right-handed tensegrity triangle for the positive trefoil knot, or a 14-bp-edged left-handed tensegrity triangle for the negative one, respectively. Each topology is designated by the Alexander–Briggs notation n i or , where n is the minimal number of nodes, C is the number of components (for links), and i distinguishes different topologies with the same n and C . ( c ) dPAGE analysis of TK j ( + ) (lanes 1 and 2), TK j ( − ) (lanes 3 and 4), and their circular ( C j , lanes 5 and 6) and linear ( L j , lanes 7 and 8) counterparts. Lanes 2, 4, 6 and 8 contain samples digested by RNase R. ( d ) The assembly complex for the hybrid BR contains tensegrity triangles of both handedness to generate three positive nodes plus three negative nodes. ( e ) Topological analyses of the hybrid BR. Lane 1, gel-purified BR; lanes 2–6, BR treated by RNase H, Nt.AlwI (for cleaving the red ring), Nt.BspQI (for cleaving the green ring), DNase I, and E. coli DNA Topo I; lanes 7 and 8, DNA and RNA references of the three individual components. During the purification of BR, the breaking down of the 95-nt circular RNA component is unavoidable, and a portion of BR falls apart as a result. The treatment of BR by RNase H, Nt.AlwI and Nt.BspQI is conducted in the presence of an assisting DNA strand complementary to the corresponding ssRNA or ssDNA ring. LX and CX represent X-nt linear and circular species, respectively. In all the gels, lane M contains the DNA size markers.

    Article Snippet: Digestion with various nucleases Various nucleases were used in this work, including Nt.AlwI (NEB), Nt.BspQI (NEB), RNase H (NEB), DNase I (NEB) and RNase R (Epicentre).

    Techniques: Ligation, Sequencing, Construct, Purification

    Detection of SSBs in the GAL2 UAS region. ( A ) Detection of SSBs by S1 nuclease. Plugs containing genomic DNA from wild-type cells were directly equilibrated in restriction digestion buffer and treated with NcoI and XbaI. Genomic DNA recovered from the melted plugs was then incubated in the presence (lanes designated +) or absence (lanes designated −) of S1 nuclease. Numbers above the panels are culture time (hours) in SPM. The diagram is labeled as for Figure 5 . ( B ) Schematic diagram of SSB detection in rad50S strains using denaturing polyacrylamide gel. Nt.AlwI introduces an SSB into specific sequences of DNA (5′-GGATCNNNN/N-3′). The GAL2 promoter has the sequence only on the + strand. Probes A and B were labeled by multiple round primer extension in the presence of radio-labeled dCTP. ( C ) and ( D ) Detection of SSBs on the −/+ strand by using strand-specific probes. All strains are homozygous for the rad50S allele. After genomic DNA was prepared from the meiotic cells at the indicated times (hours), it was treated with AccI and BspHI. The right two lanes in each panel contain 5% DNA fragments, which were further digested with HhaI or Nt.AlwI. Strains used were YHS363, YHS397, YHS427 and YHS514.

    Journal: Nucleic Acids Research

    Article Title: Meiotic association between Spo11 regulated by Rec102, Rec104 and Rec114

    doi: 10.1093/nar/gkl1162

    Figure Lengend Snippet: Detection of SSBs in the GAL2 UAS region. ( A ) Detection of SSBs by S1 nuclease. Plugs containing genomic DNA from wild-type cells were directly equilibrated in restriction digestion buffer and treated with NcoI and XbaI. Genomic DNA recovered from the melted plugs was then incubated in the presence (lanes designated +) or absence (lanes designated −) of S1 nuclease. Numbers above the panels are culture time (hours) in SPM. The diagram is labeled as for Figure 5 . ( B ) Schematic diagram of SSB detection in rad50S strains using denaturing polyacrylamide gel. Nt.AlwI introduces an SSB into specific sequences of DNA (5′-GGATCNNNN/N-3′). The GAL2 promoter has the sequence only on the + strand. Probes A and B were labeled by multiple round primer extension in the presence of radio-labeled dCTP. ( C ) and ( D ) Detection of SSBs on the −/+ strand by using strand-specific probes. All strains are homozygous for the rad50S allele. After genomic DNA was prepared from the meiotic cells at the indicated times (hours), it was treated with AccI and BspHI. The right two lanes in each panel contain 5% DNA fragments, which were further digested with HhaI or Nt.AlwI. Strains used were YHS363, YHS397, YHS427 and YHS514.

    Article Snippet: At the GAL2 locus, the purified genomic DNA was treated with AccI, BspHI, HhaI and Nt.AlwI (New England BioLabs) for several hours.

    Techniques: Incubation, Labeling, Sequencing