Single-stranded dna and rna targeted triplex-formation: Uv, cd and molecular modeling studies of foldback triplexes containing different rna, 2′-ome-rna and dna strand combinations

Journal of Biomolecular Structure and Dynamics

Volumn 14, Issue 6, 1997, Pages 715-726

  Kandimalla, Ekambar R ^a   Venkataraman, Ganesh ^b   Sasisekharan, V ^c   Agrawal, Sudhir ^a  

^a Hy bridon Inc   (United States)

^b HARVARD MIT DIVISION OF HEALTH SCIENCES AND TECHNOLOGY   (United States)

^c Massachusetts Institute of Technology Cambridge   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PURINE; PYRIMIDINE; RNA; SINGLE STRANDED DNA;

ARTICLE; CIRCULAR DICHROISM; DNA STRAND; MOLECULAR MODEL; PRIORITY JOURNAL; TRIPLE HELIX; ULTRAVIOLET RADIATION;

EID: 0030958557     PISSN: 07391102     EISSN: 15380254     Source Type: Journal    
DOI: 10.1080/07391102.1997.10508174     Document Type: Article

References (44)

1. Arnott, S., and Seising, E., 1974. J. Mol. Biol., 88:509–521.
2. Macaya, R. F., Schultz, P., and Feigon, J., 1992. J. Am Chem. Soc., 114:781–783.
3. Macaya, R. F., Wang, E., Schultze, P., Sklenar, V., and Feigon, J., 1992. J. Mol. Biol., 225:755–773.
4. Radhakrishnan, I., and Patel, D. J., 1993. J. Am. Chem. Soc., 115:1615–1617.
5. Howard, F. B., Miles, H. T., Liu, K., Frazier, K., Raghunathan, G., and Sasisekharan, V., 1992. Biochemistry, 31:10671–10677.
6. Quali, M., Letellier, R., Adnet, F., Liquier, J., Sun, J. S., Lavery, R., and Taillandier, E., 1993. Biochemistry, 32:2098–2103.
7. Raghunathan, G., Miles, H. T., and Sasisekaharan, V., 1993. Biochemistry, 32:455–462.
8. Raghunathan, G., Miles, H. T., and Sasisekaharan, V., 1995. Biopolymers, 36:333–343.
9. Roberts, R. W., and Crothers, D. M., 1992. Science, 258:1463–1465.
10. Escude, C., Francois, J. C., Sun, J. S., Ott, G., Sprinzl, M., Garestier, T., and Helene, C., 1993. Nucleic Acids Res., 21:5547–5553.
11. Han, H., and Dervan, P. B., 1993. Proc. Natl. Acad. Sci. USA., 90:3806–3810. (a) (b) Han, H. and Dervan, P.B., Nucleic Acids Res. 14, 2837–2844 (1994)
12. Wang, S., and Kool, E. T., 1994. Nucleic Acids Res., 22:2326–2333. (a) (b) Wang, S. and Cool, E.T., Nucleic Acids Res. 23, 1157–1164 (1995)
13. Xodo, L. E., Manzini, G., and Quadrifoglio, F., 1990. Nucleic Acids Res., 18:3557–3564.
14. Giovannangeli, C., Garestier, T. M., Rougee, M., Chassignol, M., Thoung, N. T., and Helene, C., 1991. J. Am. Chem. Soc., 113:7775–7777.
15. Kool, E. T., 1991. J. Am. Chem. Soc., 113:6265–6266.
16. Prakash, G., and Kool, E. T., 1991. J. Chem. Soc. Chem. Commun.,:1161–1162.
17. Kandimalla, E. R., and Agrawal, S., 1994. Gene, 149:115–121.
18. Kandimalla, E. R., Manning, A. M., and Agrawal, S. J., 1995. Biomolec. Struct. Dyn., 13:483–492.
19. Kandimalla, E. R., and Agrawal, S., 1995. Nucleosides and Nucleotides, 14:991–995.
20. Kandimalla, E. R., and Agrawal, S., 1995. Nucleic Acids Res., 23:1068–1074.
21. Giovannangeli, C., Thoung, N. T., and Helene, C., 1993. Proc. Natl. Acad. Sci.USA., 90:10013–10017.
22. Sproat, B. S., Lamond, A. I., Beijer, B., Neuner, P., and Ryder, U., 1989. Nucleic Acids Res., 17:3373–3386.
23. Schimizu, M., Konishi, A., Shimada, Y., Inoue, H., and Ohtsuka, E., 1992. FEBS Lett., 302:155–158.
24. Beaucage, S. L., 1993. Methods in Molecular Biology, Vol. 20, Protocols for Oligonucleotides and Analogs Edited by:Agrawal, S., 33–62. Totowa, New Jersey:Humana Press.
25. Borer, P. N., 1975. Handbook of Biochemistry and Molecular Biology Edited by:Fasman, G. D., 589Cleveland:CRC Press.
26. Saenger, W., 1984. Principles of nucleic acid structure. New York:Springer-Verlag.
27. Smith, P. J.C., and Arnott, S., 1978. Acta Crystallogr., A34:3–11.
28. Raghunathan, G., Miles, H. T., and Sasisekharan, V., 1994. Biopolymers, 34:1573–1581.
29. Hall, K. B., and McLaughlin, L. W., 1991. Biochemistry, 30:10606–10613.
30. Ratmeyer, L., Vinayak, R., Zhong, Y.-Y., Zon, G., and Wilson, W. D., 1994. Biochemistry, 33:5298–5304.
31. Kandimalla, E. R., Manning, A. M., and Agrawal, S., 1996. J. Biomolec. Struct. Dyn., 14:79–90.
32. Cantor, C. R., and Schimmel, P. R., 1980. Biopohysical Chemistry San Francisco, CA:W.H. Freeman.
33. Gray, D. M., Liu, J.-J., Ratliff, R. L., and Allen, F. S., 1981. Biopolymers, 20:1337–1382.
34. Egli, M., Usman, N., and Rich, A., 1993. Biochemistry, 32:3221–3237.
35. Antao, V. P., Gray, D. M., and Ratliff, R. L., 1988. Nucleic Acids Res., 16:719–738.
36. Liu, K., Miles, H. T., Frazier, J., and Sasisekharan, V., 1993. Biochemistry, 32:11802–11809.
37. Dagneau, C., Liquier, J., Scaria, P. V., Shafer, R. H., and Taillandier, E., 1984. Structural Biology:The State of the Art Edited by:Sarma, R. H., and Sarma, M. H., Vol. 2, 103–111. Schenectady, New York:Adenine Press.
38. Kandimalla, E. R., and Agrawal, S., 1996. Biochemistry, 35:15332–15339.
39. Roberts, R. W., and Crothers, D. M., 1996. J. Mol. Biol., 260:135–146.
40. Gray, D. M., Ratliff, R. L., Antao, V. P., and Gray, C. W., 1987. Structure and Expression, Vol. 2. DNA and Its Drug Complexes Edited by:Sarma, R. H., and Sarma, M. H., 147–166. New York:Adenine Press.
41. Pilch, D. S., and Schafer, R. H., 1993. J. Am. Chem. Soc., 115:2565–2571.
42. Gray, D. M., Ratliff, R. L., and Vaughan, M. R., 1992. Methods in Enzymology, 211:389–406.
43. Ivanov, V. l., and Krylov, D. Y., 1992. Methods in Enzymology, 211:111–127.
44. Akhebat, A., Dagneaux, C., Liquier, J., and Taillandier, E., 1992. J. Biomol. Struct. Dyn., 10:577–588.