Selection of non-specific DNA cleavage sites by the type IC restriction endonuclease EcoR1241

Journal of Molecular Biology

Volumn 271, Issue 1, 1997, Pages 112-123

  Szczelkun, Mark D ^a   Janscak, Pavel ^b,c   Firman, Keith ^b   Halford, Stephen E ^a  

^a UNIVERSITY OF BRISTOL   (United Kingdom)

^b UNIVERSITY OF PORTSMOUTH   (United Kingdom)

^c UNIVERSITY OF BASEL   (Switzerland)

Author keywords

DNA cleavage; DNA looping; DNA tracking; Protein DNA interation; Restriction modification

Indexed keywords

ADENOSINE TRIPHOSPHATE; CIRCULAR DNA; DNA; RESTRICTION ENDONUCLEASE;

ARTICLE; CONTROLLED STUDY; DNA CLEAVAGE; DNA CONFORMATION; DNA SEQUENCE; GENE LOCUS; NONHUMAN; PRIORITY JOURNAL; PROTEIN DNA INTERACTION;

EID: 0031559573     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1997.1172     Document Type: Article

References (37)

1. Adler S. P., Nathans D. Studies of SV40 DNA. V: conversion of circular to linear SV40 DNA by restriction endonuclease fromEscherichia coli. Biochim. Biophys. Acta. 299:1973;177-188.
2. Bates A. D., Maxwell A. M. DNA Topology. 1993;Oxford University Press, Oxford.
3. Bickle T. A. The ATP-dependent restriction enzymes. Nucleases. 1993;Cold Spring Harbor Laboratory Press, NY.
4. Bickle T. A., Brack C., Yuan R. ATP-induced conformational changes in the restriction endonuclease fromEscherichia coli. Proc. Natl Acad. Sci. USA. 75:1978;3099-3103.
5. Chang A. C. Y., Cohen S. N. Construction and characterization of amplifiable multicopy DNA cloning vehicles derived from the P15A cryptic miniplasmid. J. Bacteriol. 134:1978;1141-1156.
6. Doherty A. J., Worrall A. F., Connolly B. A. The roles of arginine-41 and tyrosine-76 in the coupling of DNA recognition to phosphodiester cleavage by DNase I: a study using site-directed mutagenesis. J. Mol. Biol. 251:1995;366-377.
7. Dreier J., Bickle T. A. ATPase activity of the type IC restriction modification system EcoR124II. J. Mol. Biol. 257:1996;960-969.
8. Dreier J., MacWilliams M. P., Bickle T. A. DNA cleavage by the type IC restriction - modification enzymeEco. J. Mol. Biol. 264:1996;722-733.
9. Dryden D. T. F., Sturrock S. S., Winter M. Structural modelling of a type I DNA methyltransferase. Nature Struct. Biol. 2:1995;632-635.
10. Dryden D. T. F., Cooper L. P., Thorpe P. H., Byron O. Thein vitroEcoin vivo. Biochemistry. 36:1997;1065-1076.
11. Endlich B., Linn S. The DNA restriction endonuclease ofEscherichia coli. J. Biol. Chem. 260:1985;5720-5728.
12. Eskin B., Linn S. The deoxyribonucleic acid modification and restriction enzymes ofEscherichia coli. J. Biol. Chem. 247:1972;6183-6191.
13. Gellert M., Mizuuchi K., O'Dea M. H., Okmori H., Tomizawa J. DNA gyrase and DNA supercoiling. Cold Spring Harbor Symp. Quant. Biol. 43:1978;35-40.
14. Janscak P., Adadjieva A., Firman K. The type I restriction endonuclease R.Eco. J. Mol. Biol. 257:1996;977-991.
15. Kneale G. G. A symmetrical model for the domain structure of type I methyltransferases. J. Mol. Biol. 243:1994;1-5.
16. Kusiak M., Price C., Rice D., Hornby D. P. The HsdS polypeptide of the type IC restriction endonucleaseEco. Mol. Microbiol. 6:1992;3251-3256.
17. Meisel A., Bickle T. A., Krüger D H., Schroeder C. Type III restriction enzymes need two inversely orientated recognition sites for DNA cleavage. Nature. 355:1992;467-469.
18. Meisel A., Mackeldanz P., Bickle T. A., Krüger D. H., Schroeder C. Type III restriction endonucleases translocate DNA in a reaction driven by recognition site-specific ATP hydrolysis. EMBO J. 14:1995;2958-2966.
19. Mernagh D. R., Kneale G. G. High resolution footprinting of a type I methyltransferase reveals a large structural distortion within the DNA recognition site. Nucl. Acids Res. 24:1996;4853-4858.
20. Murray N. E., Batten P. L., Murray K. Restriction of bacteriophage λ byEscherichia coli. J. Mol. Biol. 81:1973;395-407.
21. Ostrander E. A., Benedetti P., Wang J. C. Template supercoiling by a chimera of yeast GAL4 protein and phage T7 RNA polymerase. Science. 249:1990;1261-1265.
22. Price C., Shepherd J. C. W., Bickle T. A. DNA recognition by a new family of type I restriction enzymes: a unique relationship between two DNA specificities. EMBO J. 6:1987;1493-1497.
23. Reiser J., Yuan R. Purification and properties of the P15 specific restriction endonuclease fromEscherichia coli. J. Biol. Chem. 252:1977;451-456.
24. Roberts R. J., Halford S. E. Type II restriction endonucleases. Linn S. M., Lloyd R. S., Roberts R. J. Nucleases. 1993;Cold Spring Harbor Laboratory Press, NY.
25. Rosamund J., Endlich B., Linn S. Electron microscopic studies of the mechanism of action of the restriction endonuclease ofEscherichia coli. J. Mol. Biol. 129:1979;619-635.
26. Sambrook J. C., Fritsch E. F., Maniatis T. Molecular Cloning: A Laboratory Manual. 1989;Cold Spring Harbor Laboratory Press, NY.
27. Sealey P. G., Southern E. M. Gel electrophoresis of DNA. Rickwood D., Hames B. D. Gel Electrophoresis of Nucleic Acids. A Practical Approach. 1990;IRL Press, Oxford.
28. Shulman M. J. Model for wandering restriction enzymes. Nature. 252:1974;76-78.
29. Studier F. W., Bandyopadhyay P. K. Model for how type I restriction enzymes select cleavage sites in DNA. Proc. Natl Acad. Sci. USA. 85:1988;4677-4681.
30. Subramanya H. S., Bird L. E., Brannigan J. A., Wigley D. B. Crystal structure of a DEXX box helicase. Nature. 384:1996;379-383.
31. Szczelkun M. D., Dillingham M. S., Janscak P., Firman K., Halford S. E. Repercussions of DNA tracking by the type IC restriction endonucleaseEco. EMBO J. 15:1996;6335-6347.
32. Taylor I., Patel K., Firman K., Kneale G. Purification and biochemical characterization of theEco. Nucl. Acids. Res. 20:1992;179-186.
33. Vipond I. B., Baldwin G. S., Oram M., Erskine S. G., Wentzell L. M., Szczelkun M. D., Nobbs T. J., Halford S. E. A general assay for restriction endonucleases and other DNA-modifying enzymes with plasmid substrates. Mol. Biotechnol. 4:1995;259-268.
34. Waugh D. S., Sauer R. T. Single amino acid substitutions uncouple the DNA binding and strand scission activities ofFok. Proc. Natl Acad. Sci. USA. 90:1993;9596-9600.
35. Webb J. L., King G., Ternet D., Titheradge A. J. B., Murray N. E. Restriction byEco. EMBO J. 15:1996;2003-2009.
36. Yuan R., Hamilton D. L., Burckhardt J. DNA translocation by the restriction enzyme fromE.coli. Cell. 20:1980;237-244.
37. Zinkevich V., Popova L., Kryukov V., Abadjieva A., Bogdarina I., Janscak P., Firman K. The HsdR subunit ofEco. Nucl. Acids Res. 25:1997;503-510.