메뉴 건너뛰기




Volumn 39, Issue 18, 2011, Pages 8042-8051

DNA cleavage site selection by Type III restriction enzymes provides evidence for head-on protein collisions following 1D bidirectional motion

Author keywords

[No Author keywords available]

Indexed keywords

DNA; RESTRICTION ENDONUCLEASE; TYPE III RESTRICTION ENDONUCLEASE; UNCLASSIFIED DRUG;

EID: 80054075378     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr502     Document Type: Article
Times cited : (9)

References (42)
  • 1
    • 77952727817 scopus 로고    scopus 로고
    • Maintaining a sense of direction during long-range communication on DNA
    • Szczelkun, M.D., Friedhoff, P. and Seidel, R. (2010) Maintaining a sense of direction during long-range communication on DNA. Biochem. Soc. Trans., 38, 404-409.
    • (2010) Biochem. Soc. Trans. , vol.38 , pp. 404-409
    • Szczelkun, M.D.1    Friedhoff, P.2    Seidel, R.3
  • 2
    • 0026584744 scopus 로고
    • Type III restriction enzymes need two inversely oriented recognition sites for DNA cleavage
    • Meisel, A., Bickle, T.A., Kruger, D.H. and Schroeder, C. (1992) Type III restriction enzymes need two inversely oriented recognition sites for DNA cleavage. Nature, 355, 467-469.
    • (1992) Nature , vol.355 , pp. 467-469
    • Meisel, A.1    Bickle, T.A.2    Kruger, D.H.3    Schroeder, C.4
  • 3
    • 0029045067 scopus 로고
    • Type III restriction endonucleases translocate DNA in a reaction driven by recognition site-specific ATP hydrolysis
    • Meisel, A., Mackeldanz, P., Bickle, T.A., Kruger, D.H. and Schroeder, C. (1995) Type III restriction endonucleases translocate DNA in a reaction driven by recognition site-specific ATP hydrolysis. EMBO J., 14, 2958-2966.
    • (1995) EMBO J. , vol.14 , pp. 2958-2966
    • Meisel, A.1    MacKeldanz, P.2    Bickle, T.A.3    Kruger, D.H.4    Schroeder, C.5
  • 4
    • 0141645630 scopus 로고    scopus 로고
    • S-adenosyl methionine prevents promiscuous DNA cleavage by the EcoP1I type III restriction enzyme
    • DOI 10.1016/j.jmb.2003.08.042
    • Peakman, L.J., Antognozzi, M., Bickle, T.A., Janscak, P. and Szczelkun, M.D. (2003) S-Adenosyl methionine prevents promiscuous DNA cleavage by the EcoP1I type III restriction enzyme. J. Mol. Biol., 333, 321-335. (Pubitemid 37188575)
    • (2003) Journal of Molecular Biology , vol.333 , Issue.2 , pp. 321-335
    • Peakman, L.J.1    Antognozzi, M.2    Bickle, T.A.3    Janscak, P.4    Szczelkun, M.D.5
  • 5
    • 77952722979 scopus 로고    scopus 로고
    • Type III restriction enzymes cleave DNA by long-range interaction between sites in both head-to-head and tail-to-tail inverted repeat
    • van Aelst, K., Toth, J., Ramanathan, S.P., Schwarz, F.W., Seidel, R. and Szczelkun, M.D. (2010) Type III restriction enzymes cleave DNA by long-range interaction between sites in both head-to-head and tail-to-tail inverted repeat. Proc. Natl Acad. Sci. USA, 107, 9123-9128.
    • (2010) Proc. Natl Acad. Sci. USA , vol.107 , pp. 9123-9128
    • Van Aelst, K.1    Toth, J.2    Ramanathan, S.P.3    Schwarz, F.W.4    Seidel, R.5    Szczelkun, M.D.6
  • 6
    • 4043073592 scopus 로고    scopus 로고
    • DNA communications by Type III restriction endonucleases - Confirmation of 1D translocation over 3D looping
    • DOI 10.1093/nar/gkh762
    • Peakman, L.J. and Szczelkun, M.D. (2004) DNA communications by Type III restriction endonucleases-confirmation of 1D translocation over 3D looping. Nucleic Acids Res., 32, 4166-4174. (Pubitemid 39232289)
    • (2004) Nucleic Acids Research , vol.32 , Issue.14 , pp. 4166-4174
    • Peakman, L.J.1    Szczelkun, M.D.2
  • 7
    • 67651162118 scopus 로고    scopus 로고
    • S-Adenosyl homocysteine and DNA ends stimulate promiscuous nuclease activities in the Type III restriction endonuclease EcoPI
    • Peakman, L.J. and Szczelkun, M.D. (2009) S-Adenosyl homocysteine and DNA ends stimulate promiscuous nuclease activities in the Type III restriction endonuclease EcoPI. Nucleic Acids Res., 37, 3934-3945.
    • (2009) Nucleic Acids Res. , vol.37 , pp. 3934-3945
    • Peakman, L.J.1    Szczelkun, M.D.2
  • 8
    • 0025767319 scopus 로고
    • M.EcoP15I methylates the second adenine in its recognition sequence
    • Meisel, A., Kruger, D.H. and Bickle, T.A. (1991) M.EcoP15I methylates the second adenine in its recognition sequence. Nucleic Acids Res., 19, 3997.
    • (1991) Nucleic Acids Res. , vol.19 , pp. 3997
    • Meisel, A.1    Kruger, D.H.2    Bickle, T.A.3
  • 9
    • 0018800362 scopus 로고
    • Methylation and cleavage sequences of the EcoP1 restriction-modification enzyme
    • Bachi, B., Reiser, J. and Pirrotta, V. (1979) Methylation and cleavage sequences of the EcoP1 restriction-modification enzyme. J. Mol. Biol., 128, 143-163.
    • (1979) J. Mol. Biol. , vol.128 , pp. 143-163
    • Bachi, B.1    Reiser, J.2    Pirrotta, V.3
  • 10
    • 24144454859 scopus 로고    scopus 로고
    • Characterization of the Type III restriction endonuclease PstII from Providencia stuartii
    • DOI 10.1093/nar/gki787
    • Sears, A., Peakman, L.J., Wilson, G.G. and Szczelkun, M.D. (2005) Characterization of the Type III restriction endonuclease PstII from Providencia stuartii. Nucleic Acids Res., 33, 4775-4787. (Pubitemid 41418878)
    • (2005) Nucleic Acids Research , vol.33 , Issue.15 , pp. 4775-4787
    • Sears, A.1    Peakman, L.J.2    Wilson, G.G.3    Szczelkun, M.D.4
  • 11
    • 6344287290 scopus 로고    scopus 로고
    • Unidirectional translocation from recognition site and a necessary interaction with DNA end for cleavage by Type II restriction enzyme
    • DOI 10.1093/nar/gkh899
    • Raghavendra, N.K. and Rao, D.N. (2004) Unidirectional translocation from recognition site and a necessary interaction with DNA end for cleavage by Type III restriction enzyme. Nucleic Acids Res., 32, 5703-5711. (Pubitemid 39619153)
    • (2004) Nucleic Acids Research , vol.32 , Issue.19 , pp. 5703-5711
    • Raghavendra, N.K.1    Rao, D.N.2
  • 12
    • 34548105170 scopus 로고    scopus 로고
    • DNA looping and translocation provide an optimal cleavage mechanism for the type III restriction enzymes
    • DOI 10.1038/sj.emboj.7601807, PII 7601807
    • Crampton, N., Roes, S., Dryden, D.T., Rao, D.N., Edwardson, J.M. and Henderson, R.M. (2007) DNA looping and translocation provide an optimal cleavage mechanism for the type III restriction enzymes. EMBO J., 26, 3815-3825. (Pubitemid 47295874)
    • (2007) EMBO Journal , vol.26 , Issue.16 , pp. 3815-3825
    • Crampton, N.1    Roes, S.2    Dryden, D.T.F.3    Rao, D.N.4    Edwardson, J.M.5    Henderson, R.M.6
  • 14
    • 0034130457 scopus 로고    scopus 로고
    • Type i restriction systems: Sophisticated molecular machines
    • Murray, N.E. (2000) Type I restriction systems: sophisticated molecular machines. Microbiol. Mol. Biol. Rev., 64, 412-434.
    • (2000) Microbiol. Mol. Biol. Rev. , vol.64 , pp. 412-434
    • Murray, N.E.1
  • 17
    • 43249131522 scopus 로고    scopus 로고
    • Motor step size and ATP coupling efficiency of the dsDNA translocase EcoR124I
    • DOI 10.1038/emboj.2008.69, PII EMBOJ200869
    • Seidel, R., Bloom, J.G., Dekker, C. and Szczelkun, M.D. (2008) Motor step size and ATP coupling efficiency of the dsDNA translocase EcoR124I. EMBO J., 27, 1388-1398. (Pubitemid 351655181)
    • (2008) EMBO Journal , vol.27 , Issue.9 , pp. 1388-1398
    • Seidel, R.1    Bloom, J.G.P.2    Dekker, C.3    Szczelkun, M.D.4
  • 18
    • 0028936127 scopus 로고
    • ATP hydrolysis is required for DNA cleavage by EcoPI restriction enzyme
    • Saha, S. and Rao, D.N. (1995) ATP hydrolysis is required for DNA cleavage by EcoPI restriction enzyme. J. Mol. Biol., 247, 559-567.
    • (1995) J. Mol. Biol. , vol.247 , pp. 559-567
    • Saha, S.1    Rao, D.N.2
  • 20
    • 79959383539 scopus 로고    scopus 로고
    • DNA translocation by type III restriction enzymes: A comparison of current models of their operation derived from ensemble and single-molecule measurements
    • Dryden, D.T., Edwardson, J.M. and Henderson, R.M. (2011) DNA translocation by type III restriction enzymes: a comparison of current models of their operation derived from ensemble and single-molecule measurements. Nucleic Acids Res., 39, 4525-4531.
    • (2011) Nucleic Acids Res. , vol.39 , pp. 4525-4531
    • Dryden, D.T.1    Edwardson, J.M.2    Henderson, R.M.3
  • 21
    • 63449097890 scopus 로고    scopus 로고
    • Functional characterization and modulation of the DNA cleavage efficiency of type III restriction endonuclease EcoP15I in its interaction with two sites in the DNA target
    • Moncke-Buchner, E., Rothenberg, M., Reich, S., Wagenfuhr, K., Matsumura, H., Terauchi, R., Kruger, D.H. and Reuter, M. (2009) Functional characterization and modulation of the DNA cleavage efficiency of type III restriction endonuclease EcoP15I in its interaction with two sites in the DNA target. J. Mol. Biol., 387, 1309-1319.
    • (2009) J. Mol. Biol. , vol.387 , pp. 1309-1319
    • Moncke-Buchner, E.1    Rothenberg, M.2    Reich, S.3    Wagenfuhr, K.4    Matsumura, H.5    Terauchi, R.6    Kruger, D.H.7    Reuter, M.8
  • 22
    • 0006010204 scopus 로고
    • A correction in the nucleotide sequence of the Tn903 kanamycin resistance determinant in pUC4K
    • Taylor, L.A. and Rose, R.E. (1988) A correction in the nucleotide sequence of the Tn903 kanamycin resistance determinant in pUC4K. Nucleic Acids Res, 16, 358.
    • (1988) Nucleic Acids Res , vol.16 , pp. 358
    • Taylor, L.A.1    Rose, R.E.2
  • 25
    • 0035936699 scopus 로고    scopus 로고
    • Subunit assembly and mode of DNA cleavage of the type III restriction endonucleases EcoP1I and EcoP15I
    • DOI 10.1006/jmbi.2000.4411
    • Janscak, P., Sandmeier, U., Szczelkun, M.D. and Bickle, T.A. (2001) Subunit assembly and mode of DNA cleavage of the type III restriction endonucleases EcoP1I and EcoP15I. J. Mol. Biol., 306, 417-431. (Pubitemid 33027712)
    • (2001) Journal of Molecular Biology , vol.306 , Issue.3 , pp. 417-431
    • Janscak, P.1    Sandmeier, U.2    Szczelkun, M.D.3    Bickle, T.A.4
  • 28
    • 0344875225 scopus 로고    scopus 로고
    • DNA supercoiling enables the Type IIS restriction enzyme BspMI to recognise the relative orientation of two DNA sequences
    • DOI 10.1093/nar/gkg743
    • Kingston, I.J., Gormley, N.A. and Halford, S.E. (2003) DNA supercoiling enables the Type IIS restriction enzyme BspMI to recognize the relative orientation of two DNA sequences. Nucleic Acids Res., 31, 5221-5228. (Pubitemid 37441889)
    • (2003) Nucleic Acids Research , vol.31 , Issue.18 , pp. 5221-5228
    • Kingston, I.J.1    Gormley, N.A.2    Halford, S.E.3
  • 29
    • 0034607553 scopus 로고    scopus 로고
    • Alternative geometries of DNA looping: An analysis using the SfiI endonuclease
    • Watson, M.A., Gowers, D.M. and Halford, S.E. (2000) Alternative geometries of DNA looping: an analysis using the SfiI endonuclease. J. Mol. Biol., 298, 461-475.
    • (2000) J. Mol. Biol. , vol.298 , pp. 461-475
    • Watson, M.A.1    Gowers, D.M.2    Halford, S.E.3
  • 30
    • 0026637325 scopus 로고
    • Transpositional recombination: Mechanistic insights from studies of mu and other elements
    • Mizuuchi, K. (1992) Transpositional recombination: mechanistic insights from studies of mu and other elements. Annu. Rev. Biochem., 61, 1011-1051.
    • (1992) Annu. Rev. Biochem. , vol.61 , pp. 1011-1051
    • Mizuuchi, K.1
  • 32
    • 33746382212 scopus 로고    scopus 로고
    • Mechanisms of site-specific recombination
    • DOI 10.1146/annurev.biochem.73.011303.073908
    • Grindley, N.D., Whiteson, K.L. and Rice, P.A. (2006) Mechanisms of site-specific recombination. Annu. Rev. Biochem., 75, 567-605. (Pubitemid 44118044)
    • (2006) Annual Review of Biochemistry , vol.75 , pp. 567-605
    • Grindley, N.D.F.1    Whiteson, K.L.2    Rice, P.A.3
  • 33
    • 0034723157 scopus 로고    scopus 로고
    • DNA supercoiling during ATP-dependent DNA translocation by the type i restriction enzyme EcoAI
    • Janscak, P. and Bickle, T.A. (2000) DNA supercoiling during ATP-dependent DNA translocation by the type I restriction enzyme EcoAI. J. Mol. Biol., 295, 1089-1099.
    • (2000) J. Mol. Biol. , vol.295 , pp. 1089-1099
    • Janscak, P.1    Bickle, T.A.2
  • 34
    • 0029978713 scopus 로고    scopus 로고
    • Recombination by resolvase to analyse DNA communications by the SfiI restriction endonuclease
    • Szczelkun, M.D. and Halford, S.E. (1996) Recombination by resolvase to analyse DNA communications by the SfiI restriction endonuclease. EMBO J., 15, 1460-1469.
    • (1996) EMBO J. , vol.15 , pp. 1460-1469
    • Szczelkun, M.D.1    Halford, S.E.2
  • 35
    • 0035902776 scopus 로고    scopus 로고
    • Analysis of DNA looping interactions by type II restriction enzymes that require two copies of their recognition sites
    • DOI 10.1006/jmbi.2001.4893
    • Milsom, S.E., Halford, S.E., Embleton, M.L. and Szczelkun, M.D. (2001) Analysis of DNA looping interactions by type II restriction enzymes that require two copies of their recognition sites. J. Mol. Biol., 311, 515-527. (Pubitemid 32816586)
    • (2001) Journal of Molecular Biology , vol.311 , Issue.3 , pp. 515-527
    • Milsom, S.E.1    Halford, S.E.2    Embleton, M.L.3    Szczelkun, M.D.4
  • 36
    • 2342538957 scopus 로고    scopus 로고
    • Dynamics of DNA loop capture by the SfiI restriction endonuclease on supercoiled and relaxed DNA
    • DOI 10.1016/j.jmb.2004.03.046, PII S0022283604003481
    • Embleton, M.L., Vologodskii, A.V. and Halford, S.E. (2004) Dynamics of DNA loop capture by the Sfil restriction endonuclease on supercoiled and relaxed DNA. J. Mol. Biol., 339, 53-66. (Pubitemid 38569689)
    • (2004) Journal of Molecular Biology , vol.339 , Issue.1 , pp. 53-66
    • Embleton, M.L.1    Vologodskii, A.V.2    Halford, S.E.3
  • 37
    • 20444368444 scopus 로고    scopus 로고
    • Long-range communications between DNA sites by the dimeric restriction endonuclease SgrAI
    • DOI 10.1016/j.jmb.2005.04.053, PII S0022283605004870
    • Wood, K.M., Daniels, L.E. and Halford, S.E. (2005) Long-range communications between DNA sites by the dimeric restriction endonuclease SgrAl. J. Mol. Biol., 350, 240-253. (Pubitemid 40805459)
    • (2005) Journal of Molecular Biology , vol.350 , Issue.2 , pp. 240-253
    • Wood, K.M.1    Daniels, L.E.2    Halford, S.E.3
  • 38
    • 33847162746 scopus 로고    scopus 로고
    • Restriction Endonucleases that Bridge and Excise Two Recognition Sites from DNA
    • DOI 10.1016/j.jmb.2006.12.070, PII S0022283606017694
    • Marshall, J.J., Gowers, D.M. and Halford, S.E. (2007) Restriction endonucleases that bridge and excise two recognition sites from DNA. J. Mol. Biol., 367, 419-431. (Pubitemid 46295428)
    • (2007) Journal of Molecular Biology , vol.367 , Issue.2 , pp. 419-431
    • Marshall, J.J.T.1    Gowers, D.M.2    Halford, S.E.3
  • 40
    • 33744546367 scopus 로고    scopus 로고
    • DNA looping by two-site restriction endonucleases: Heterogeneous probability distributions for loop size and unbinding force
    • DOI 10.1093/nar/gkl382
    • Gemmen, G.J., Millin, R. and Smith, D.E. (2006) DNA looping by two-site restriction endonucleases: heterogeneous probability distributions for loop size and unbinding force. Nucleic Acids Res., 34, 2864-2877. (Pubitemid 44540415)
    • (2006) Nucleic Acids Research , vol.34 , Issue.10 , pp. 2864-2877
    • Gemmen, G.J.1    Millin, R.2    Smith, D.E.3
  • 42
    • 63849091245 scopus 로고    scopus 로고
    • Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses
    • Fullwood, M.J., Wei, C.L., Liu, E.T. and Ruan, Y. (2009) Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses. Genome Res., 19, 521-532.
    • (2009) Genome Res. , vol.19 , pp. 521-532
    • Fullwood, M.J.1    Wei, C.L.2    Liu, E.T.3    Ruan, Y.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.