Solution structure of an intramolecular DNA triplex containing 5-(1- propynyl)-2'-deoxyuridine residues in the third strand

Biochemistry

Volumn 37, Issue 17, 1998, Pages 5820-5830

  Phipps, A Kathryn ^a   Tarköy, Markus ^a   Schultze, Peter ^a   Feigon, Juli ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CROSS LINKING; DNA STRUCTURE; GENE EXPRESSION REGULATION; GENE TARGETING; IN SITU HYBRIDIZATION; NONHUMAN; NUCLEAR MAGNETIC RESONANCE; PRIORITY JOURNAL; PROTEIN STABILITY; RNA SEQUENCE; STRUCTURE ANALYSIS; TRIPLE HELIX;

EID: 0032574686     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi972811u     Document Type: Article

References (54)

1. Felsenfeld, G., Davies, D. R., and Rich, A. (1957) J. Am. Chem. Soc. 79, 2023-2024.
2. Uhlmann, E., and Peyman, A. (1990) Chem. Rev. 90, 543-584.
3. Crooke, S. T. (1992) Annu. Rev. Pharmacol. Toxicol. 32, 329-376.
4. Maher, L. J., III (1996) Cancer Invest. 14, 66-82.
5. Neidle, S. (1997) Anti-Cancer Drug Des. 12, 433-442.
6. Wang, E., and Feigen, J. (1998) Structures of Nucleic Acid Triplexes, Oxford University Press, Oxford (in press).
7. Soyfer, V. N., and Potaman, V. N. (1996) Triple-Helical Nucleic Acids, Springer-Verlag, New York.
8. Sun, J.-S., Garestier, T., and Hélène, C. (1996) Curr. Opin. Struct. Biol. 6, 327-333.
9. Moraru-Allen, A. A., Cassidy, S., Alvarez, J. L. A., Fox, K. R., Brown, T., and Lane, A. N. (1997) Nucleic Acids Res. 25, 1890-1896.
10. Chan, P. P., and Glazer, P. M. (1997) J. Mol. Med. 75, 267-282.
11. Moses, A. C., and Schepartz, A. (1996) J. Am. Chem. Soc. 118, 10896-10897.
12. Ihara, T., Maruo, Y., Takenaka, S., and Takagi, M. (1996) Nucleic Acids Res. 24, 4273-4280.
13. Grant, K. B., and Dervan, P. B. (1996) Biochemistry 35, 12313-12319.
14. Moser, H. E., and Dervan, P. B. (1987) Science 238, 645-650.
15. Rininsland, F., Johnson, T. R., Chernicky, C. L., Schulze, E., Burfeind, P., and Ilan, J. (1997) Proc. Natl. Acad. Sci. U.S.A. 94, 5854-5859.
16. Guieysse, A. L., Praseuth, D., Grigoriev, M., Harel-Bellan, A., and Hélène, C. (1996) Nucleic Acids Res. 24, 4210-4216.
17. Giovannangeli, C., Diviacco, S., Labrousse, V., Gryaznov, S., Charneau, P., and Helene, C. (1997) Proc. Natl. Acad. Sci. U.S.A. 94, 79-84.
18. Wagner, R. W., Matteucci, M. D., Lewis, J. G., Gutierrez, A. J., Moulds, C., and Froehler, B. C. (1993) Science 260, 1510-1513.
19. Wagner, R. W. (1994) Nature 372, 333-335.
20. De Clercq, E., Descamps, J., Balzarini, J., Giziewicz, J., Barr, P. J., and Robins, M. J. (1983) J. Med. Chem. 26, 661-666.
21. Goodchild, J., Porter, R. A., Raper, R. H., Sim, I. S., Upton, R. M., Viney, J., and Wadsworth, H. J. (1983) J. Med. Chem. 26, 1252-1257.
22. Froehler, B. C., Wadwani, S., Terhorst, T. J., and Gerrard, S. R. (1992) Tetrahedron Lett. 33, 5307-5310.
23. Moulds, C., Lewis, J. G., Froehler, B. C., Grant, D., Huang, T., Milligan, J. F., Matteucci, M. D., and Wagner, R. W. (1995) Biochemistry 34, 5044-5053.
24. Gutierrez, A. J., Matteucci, M. D., Grant, D., Matsumura, S., Wagner, R. W., and Froehler, B. C. (1997) Biochemistry 36, 743-748.
25. Flanagan, W. M., Kothavale, A., and Wagner, R. W. (1996) Nucleic Acids Res. 24, 2936-2941.
26. Fenster, S. D., Wagner, R. W., Froehler, B. C., and Chin, D. J. (1994) Biochemistry 33, 8391-8398.
27. Bonham, M. A., Brown, S., Boyd, A. L., Brown, P. H., Bruckenstein, D. A., Hanvey, J. C., Thomson, S. A., Pipe, A., Hassman, F., Bisi, J. E., Froehler, B. C., Matteucci, M. D., Wagner, R. W., Noble, S. A., and Babiss, L. E. (1995) Nucleic Acids Res. 23, 1197-1203.
28. Matteucci, M., Lin, K. Y., Huang, T., Wagner, R., Sternbach, D. D., Mehrotra, M., and Besterman, J. M. (1997) J. Am. Chem. Soc. 119, 6939-6940.
29. Tarköy, M., Phipps, A. K., Schultze, P., and Feigon, J. (1998) Biochemistry 37, 5810-5819.
30. Robins, M. J., Barr, P. J., and Giziewicz, J. (1982) Can. J. Chem. 60, 554-557.
31. Gait, M. J. (1984) in Oligonucleotide synthesis: a practical approach (Rickwood, D., and Hames, B. D., Eds.) IRL Press, Oxford and Washington, DC.
32. Kumar, A., Ernst, R. R., and Wüthrich, K. (1980) Biochem. Biophys. Res. Commun. 95, 1-6.
33. Sklenář, V., and Bax, A. (1987) J. Magn. Reson. 75, 378-383.
34. Marion, D., Ikura, M., Tschudin, R., and Bax, A. (1989) J. Magn. Reson. 85, 393-399.
35. Piantini, U., Sørensen, O. W., and Ernst, R. R. (1982) J. Am. Chem. Soc. 104, 6800-6801.
36. Bax, A., and Davis, D. G. (1985) J. Magn. Reson. 65, 355-360.
37. Santoro, J., and King, G. (1992) J. Magn. Reson. 97, 202-207.
38. Macaya, R. F., Schultze, P., and Feigon, J. (1992) J. Am. Chem. Soc. 114, 781-783.
39. De Leeuw, F. A. A. M., and Altona, C. (1983) J. Comput. Chem. 4, 428-437.
40. van Wijk, J., Huckriede, B. D., Ippel, J. H., and Altona, C. J. (1992) Methods Enzymol. 211, 286-306.
41. Neidig, K. P., Geyer, M., Gorier, A., Antz, C., Saffrich, R., Beneicke, W., and Kalbitzer, H. R. (1995) J. Biomol. NMR 6, 255-270.
42. Brünger, A. T. (1992) X-PLOR (Version 3.1) Manual, Yale University Press, New Haven, CT.
43. Lavery, R., and Sklenar, H. (1988) J. Biomol. Struct. Dyn. 6, 63-91.
44. Sklenář, V., and Feigon, J. (1990) Nature 345, 836-838.
45. Macaya, R. F., Wang, E., Schultze, P., Sklenář, V., and Feigon, J. (1992) J. Mol. Biol. 225, 755-773.
46. Feigon, J., Koshlap, K. M., and Smith, F. W. (1995) in Methods in Enzymology (James, T. L., Ed.) pp 225-255, Academic Press, San Diego.
47. Koshlap, K. M., Schultze, P., Brunar, H., Dervan, P. B., and Feigon, J. (1997) Biochemistry 36, 2659-2668.
48. Radhakrishnan, I., and Patel, D. J. (1994) Biochemistry 33, 11405-11416.
49. Lankhorst, P. P., Erkelens, C., Haasnoot, C. A., and Altona, C. (1983) Nucleic Acids Res. 11, 7215-7230.
50. Gotfredsen, C. H., Schultze, P., and Feigon, J. (1998) J. Am. Chem. Soc. (in press).
51. Saenger, W. (1984) Principles of Nucleic Acid Structure, Springer-Verlag, New York.
52. Plavec, J., Tong, W. M., and Chattopadhyaya, J. (1993) J. Am. Chem. Soc. 115, 9734-9746.
53. Thibaudeau, C., Plavec, J., and Chattopadhyaya, J. (1996) J. Org. Chem. 61, 266-286.
54. Arnott, S., and Hukins, D. W. (1972) Biochem. Biophys. Res. Commun. 47, 1504-1509.