Evidence for the existence of a pseudoknot structure at the 3′ terminus of the flavivirus genomic RNA

Biochemistry

Volumn 35, Issue 13, 1996, Pages 4222-4230

  Shi, Pei Yong ^a   Brinton, Margo A ^a   Veal, James M ^a,b   Zhong, Yi Yi ^a   Wilson, W David ^a  

^a GEORGIA STATE UNIVERSITY   (United States)

^b GLAXOSMITHKLINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BASE PAIRING; CIRCULAR DICHROISM; DNA TEMPLATE; FLAVIVIRUS; MOLECULAR MODEL; PRIORITY JOURNAL; PROTEIN FOLDING; PROTEIN SECONDARY STRUCTURE; PROTEIN TERTIARY STRUCTURE; RNA CONFORMATION; RNA REPLICATION; RNA SEQUENCE; RNA STRUCTURE; STEREOCHEMISTRY; VIRUS REPLICATION; WEST NILE FLAVIVIRUS;

BASE SEQUENCE; CIRCULAR DICHROISM; DNA, VIRAL; GENOME, VIRAL; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; NUCLEIC ACID DENATURATION; RIBONUCLEASES; RNA, VIRAL; TEMPLATES, GENETIC; THERMODYNAMICS; TRANSCRIPTION, GENETIC; ULTRAVIOLET RAYS; WEST NILE VIRUS;

EID: 0029994685     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi952398v     Document Type: Article

References (46)

1. Andreazzoli, M, & Gerbi, S. A. (1991) EMBO J. 10, 767-777.
2. Banerjee, A. R., Jaeger, J. A., & Turner, D. H. (1993) Biochemistry 32, 153-163.
3. Battiste, J. L., Tan, R., Frankel, A. D., & Williamson J. R. (1994) Biochemistry 33, 2741-2747.
4. Blackwell, J. L., & Brinton, M. A. (1995) J. Virol. 69, 5650-5658.
5. Brinton, M. A. (1983) J. Virol. 46, 860-870.
6. Brinton, M. A. (1986) in Togaviridae and Flaviviridae, the viruses (Schlesinger, S., & Schlesinger, M., Eds.) pp 329-376, Plenum, New York, NY.
7. Brinton, M. A., & Dispoto, J. H. (1987) Virology 162, 290-299.
8. Brinton, M. A., Fernandez, A. V., & Dispoto, J. H. (1986) Virology 153, 113-121.
9. Chambers, T. J., Hahn, C. S., Galler, R., & Rice, C. M. (1990) Annu. Rev. Microbiol. 44, 649-688.
10. Chandrasekaran, R., & Arnott, S. (1989) in New Series (Madelung, O., Ed.) Vol. VII/1b, pp 31-170, Landolt-Bornstein.
11. Chang, K.-Y., & Tinoco, I., Jr. (1994) Proc. Natl. Acad. Sci. U.S.A. 91, 8705-8709.
12. Cole, P. E., Yang, S. K., & Crothers, D. M. (1972) Biochemistry 11, 4358-4368.
13. Crothers, D. M., Cole, P. E., Wilbers, C. W., & Shulman, R. G. (1974) J. Mol. Biol. 87, 63-88.
14. Drepher, T. W., & Hall, T. C. (1988) J. Mol. Biol. 201, 31-40.
15. Gluick, T. C., & Draper, D. E. (1994) J. Mol. Biol. 241, 246-262.
16. Heus, H. A., & Pardi, A. (1991) Science 253, 191-194.
17. Jacobson, S. J., Konings, D. A. M., & Sarnow, P. (1993) J. Virol. 67, 2961-2971.
18. Jaeger, J. A., Turner, D. H., & Zuker, M. (1989) Proc. Natl. Acad. Sci. U.S.A. 86, 7706-7710.
19. Jaeger, J. A., Zuker, M., & Turner, D. H. (1990) Biochemistry 29, 10147-10158.
20. Kibler-Herzog, L., Kell, B., Zon, G., Shinozuka, K., Mizan, S., & Wilson, W. D. (1990). Nucleic Acids Res. 18, 3545-3555.
21. Lai, C.-J., Men, R., Pethel, M., & Bray, M. (1992) in Vaccines 92 (FBrown, F., Chanock, R. M., Ginsberg, H. S., & Lerner, R. A., Eds.) pp 265-270, Cold Spring Harbor Press, Cold Spring Harbor, NY.
22. Laing, L. G., & Draper, D. E. (1994) J. Mol. Biol. 237, 560-576.
23. Lorsch, J. R., & Szostak, J. W. (1994) Biochemistry 33, 973-982.
24. Manning, G. S. (1978) Q. Rev. Biophys. 11, 179-246.
25. Matsumoto, T., Nishikawa, K., Hori, H., Ohta, T., Miura, K. I., & Watanabe, K. (1990) J. Biochem. 107, 331-338.
26. Milligan, J. F., Groebe, D. R., Witherell, G. W., & Uhlenbeck, O. C. (1987) Nucleic Acids Res. 15, 8783-8798.
27. Murphy, F. L., Wang, Y.-H., Griffith, J. D., & Cech, T. R. (1994) Science 265, 1709-1712.
28. Pleij, C. W. A., Rietveld, K., & Bosch L. (1985) Nucleic Acids Res. 13, 1717-1731.
29. Pley, H. W., Flaherty, K. M, & McKay D. B. (1994) Nature 372, 68-74.
30. Puglisi, J. D., Tan, R., Calnan, B. J., Frankel, A. D., & Williamson J. R. (1992) Science 257, 76-80.
31. Pyle, A. M., & Green J. B. (1995) Curr. Opin. Struct. Biol. 5, 303-310.
32. Record, M. T., Anderson, C. F., & Lohman, T. M. (1978) Q. Rev. Biophys. 11, 103-178.
33. Rice, C. M., Lenches, E. M., Eddy, S. R., Shin, S. J., Sheets, R. L., & Strauss, J. H. (1985) Science 229, 726-735.
34. Rould, M. A., Perona, J. J., Söll, D., & Steitz, T. A. (1989) Science 246, 1135-1142.
35. Szewczak, A. A., & Moore, P. B. (1995) J. Mol. Biol. 247, 81-98.
36. Turner, D. H., & Bevilacqua, P. C. (1993) in the RNA world (Gesteland, R. F., & Atkins, J. F., Eds.) pp 447-464, Cold Spring Harbor Press, Cold Spring Harbor, NY.
37. Veal, J. M., & Wilson, W. D. (1991) J. Biomol. Struct. Dyn. 8, 1119-1145.
38. Walter, A. E., & Turner, D. H. (1994) Biochemistry 33, 12715-12719.
39. Weiner, S. J., & Kollman, P. A. (1986). J. Comput. Chem. 7, 230-252.
40. Weiner, S. J., Kollman, P. A., Case D. A., Singh, U. C., Ghio, C., Alagona, G., Profeta, S., Jr., & Weiner, P. (1984) J. Am. Chem. Soc. 106, 765-784.
41. Wikman, F. P., Siboska G. E., Petersen, H. U., & Clark, B. C. (1982) EMBO J. 1, 1095-1100.
42. Williams, A. L., & Tinoco, I., Jr. (1986) Nucleic Acids Res. 14, 299-315.
43. Wimberly, B., Varani, G., & Tinoco, I., Jr. (1993) Biochemistry 32, 1078-1087.
44. Wyatt, K. R., & Tinoco, I., Jr. (1993) in the RNA world (Gesteland, R. F., & Atkins, J. F., Eds.), pp 465-496, Cold Spring Harbor Press, Cold Spring Harbor, NY.
45. Yao, S., & Wilson, W. D. (1992) J. Biomol. Struct. Dyn. 10, 363-387.
46. Zou, E. T., Tanious, F. A., Wilson, W. D., Zon, G., Tan, G., & Wartell, R. M. (1990) Biochemistry 29, 4446-4456.