Design and analysis of molecular motifs for specific recognition of RNA

Bioorganic and Medicinal Chemistry

Volumn 5, Issue 6, 1997, Pages 1157-1172

  Li, Ke ^c   Fernandez Saiz, M ^a   Rigl, C Ted ^a   Kumar, Arvind ^a   Ragunathan, Kaliappa G ^b   McConnaughie, Adrian W ^a   Boykin, David W ^a   Schneider, Hans Jörg ^b   Wilson, W David ^b  

^a GEORGIA STATE UNIVERSITY   (United States)

^b SAARLAND UNIVERSITY   (Germany)

^c NONE

Author keywords

[No Author keywords available]

Indexed keywords

AMINOGLYCOSIDE; ANTIINFECTIVE AGENT; GENTAMICIN; KANAMYCIN; NEOMYCIN; PIPERIDINE DERIVATIVE; REV PROTEIN; SPECTINOMYCIN; STREPTOMYCIN; VIRUS RNA;

CIRCULAR DICHROISM; CONFERENCE PAPER; DRUG ACTIVITY; DRUG DESIGN; DRUG SYNTHESIS; HUMAN IMMUNODEFICIENCY VIRUS 1; MOLECULAR RECOGNITION; NONHUMAN; RNA BINDING; RNA SEQUENCE; RNA STRUCTURE;

AMINO ACID SEQUENCE; AMINOGLYCOSIDES; ANTI-BACTERIAL AGENTS; BINDING SITES; CARBOHYDRATE SEQUENCE; CATIONS; CHEMISTRY, PHYSICAL; CIRCULAR DICHROISM; DNA; DRUG DESIGN; HEATING; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEIC ACID DENATURATION; PIPERIDINES; RNA; RNA, VIRAL; SUBSTRATE SPECIFICITY;

HUMAN IMMUNODEFICIENCY VIRUS; HUMAN IMMUNODEFICIENCY VIRUS 1;

EID: 0030908404     PISSN: 09680896     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0968-0896(97)00054-0     Document Type: Conference Paper

References (48)

1. Waring, M. J. In The Molecular Basis of Antibiotic Action, Gale, E. F.; Cundliffe, E.; Reynolds, P. E.; Richmond, M. H.; Waring, M. J., Eds.; Wiley: London, 1881; p 287, 2nd ed.
2. Frei, E., III. Cancer Chemother. Rep. 1974, 54, 49.
3. (a) Wilson, W. D.; Li, Y.; Veal, J. In Advances in DNA Sequence Specific Agents; Hurley L. H., Ed.; JAI: Greenwich, 1992; Vol. 1, p 89.
4. (b) Scott, E. V.; Jones, R. L.; Banville, D. L.; Zon, G.; Marzilli, L. G.; Wilson, W. D. Biochemistry 1988, 27, 915.
5. (c) Scott, E. V.; Zon, G.; Marzilli, L. G.; Wilson, W. D. Biochemistry 1988, 27, 7940.
6. (d) Kamitori, S.; Takusagawa, F. J. Mol. Biol. 1992, 225, 445.
7. (e) Kamitori, S.; Takusagawa, F. J. Am. Chem. Soc. 1994, 116, 4154.
8. Cundliffe, E. In The Ribosome: Structure, Function, and Evolution; Hill, W. E.; Dahlberg, A.; Garrett, R. A.; Moore, P. B.; Schlessinger, D.; Warner, J. R., Eds.; American Society of Microbiology: Washington, D.C., 1990; p 479.
9. (a) Tinoco, I., Jr. J. Phys. Chem. 1996, 100, 13311.
10. (b) Lavery, R.; Pullman, B. Nucleic Acids Res. 1981, 9, 4677.
11. Wilson, W. D. In Comprehensive Natural Products Chemistry Vol. 7, DNA and Aspects of Molecular Biology, Kool, E., Ed; Elsevier Science: Oxford, in press.
12. Geierstanger, B. H.; Wemmer, D. E. In Annual Review of Biophysics and Biomolecular Structure; Stroud, R. M., Ed.; Annual Reviews: Palo Alto, 1995; p 463.
13. (a) Ellenberger, T. Curr. Opin. Struct. Biol. 1994, 4, 12.
14. (b) Raumann, B. E.; Brown, B. M.; Sauer, R. T. Curr. Opin. Struct. Biol. 1994, 4, 36.
15. (a) Nagai, K. Curr. Opin. Struct. Biol. 1996, 6, 53.
16. (b) Nagai, K.; Mattaj, I. W. RNA-Protein Interactions; IRL: Oxford, 1994.
17. (a) Puglisi, J. D.; Chen, L.; Blanchard, S.; Frankel, A. D. Science 1995, 270, 1200.
18. (b) Ye, X; Kumar, A.; Patel, D. J. Chem. and Biol. 1995, 2, 827.
19. (c) Leclerc, F.; Cedergren, R.; Ellington, A. D. Nature Struct. Biol. 1994, 1, 293.
20. (d) Scanlon, M. J.; Fairlie, D. P.; Craik, D. J.; Englebretsen, D. R.; West, M. L. Biochemistry 1995, 34, 8242.
21. (e) Battiste, J. L.; Mao, H.; Rao, N. S., Tan, R.; Muhandiram, D. R.; Kay, L. E.; Frankel, A. D.; Williamson, J. R. Science 1996, 273, 1547.
22. Zapp, M. L.; Stern, S.; Green, M. R. Cell 1993, 74, 969.
23. (a) Tao, J.; Frankel, A. D. Biochemistry 1996, 35, 2229; Connell, G. J.; Illangesekare, M.; Yarus, M. Biochemistry 1993, 32, 5497.
24. (a) Tao, J.; Frankel, A. D. Biochemistry 1996, 35, 2229; Connell, G. J.; Illangesekare, M.; Yarus, M. Biochemistry 1993, 32, 5497.
25. (c) Puglisi, J. D.; Tan, R.; Calnan, B. J.; Frankel, A. D.; Williamson, J. R. Science 1992, 257, 76.
26. (d) Famulok, M. J. Am. Chem. Sic. 1994, 116, 1698.
27. McConnaughie, A. W.; Spychala, J.; Zhao, M.; Boykin, D.; Wilson, W. D. J. Med. Chem. 1994, 37, 1063.
28. (a) Fernandez-Saiz, M.; Schneider, H.-J.; Sartorius, J.; Wilson, W. D. J. Am. Chem. Soc. 1996, 118, 4739.
29. (b) Ragunathan, K. G.; Schneider, H.-J. J. C. S. Perkins Trans. 1997, in press.
30. (a) Perrin, D. D. Dissociation Constants of Organic Bases in Aqueous Solution; Butterworths: London, 1965.
31. (b) Botto, R. E.; Coxon, B. J. Am. Chem. Soc. 1983, 105, 1021.
32. (a) Cullen; B. R.; Malim, M. H. Trends in Biochem. Sci. 1991, 16, 346.
33. (b) Bartel, D. P.; Zapp, M. L.; Green, M. R.; Szostak, J. W. Cell 1991, 67, 529.
34. (c) Pritchard, C. E.; Grasby, J. A.; Hamy, F. Zacharek, A. M.; Singh, M.; Karn, J.; Gait, M. J. Nucleic Acid Res. 1994, 22, 2592.
35. Tan, R.; Chen, L.; Buettner, D. H.; Frankel, A. D. Cell 1993, 73, 1031.
36. (a) Battiste, J. L.; Tan, R.; Frankel, A. D.; Williamson, J. R. J. Biomol. NMR 1995, 6, 375.
37. (b) Peterson, R. D.; Bartel, D. P.; Szostak, J. W.; Horvath, S. J.; Feigon, J. Biochemistry 1994, 33, 5357.
38. Rigl, C. T.; Lloyd, D. H.; Tsou, D. S.; Gryaznov, S. M.; Wilson, W. D. Biochemistry 1997, 36, 650.
39. (a) Werstuck, G.; Zapp, M. L.; Green, M. R. Chemistry & Biology 1996, 3, 129.
40. (b) Symensma, T. L.; Giver, L.; Zapp, M.; Takle, G. B.; Ellington, A. D. J. Virology 1996, 70, 179.
41. Weeks, K. M.; Crothers, D. M. Biochemistry 1992, 31, 10281.
42. Boykin, D. W.; Kumar, A.; Spychala, J.; Zhou, M.; Lombardy, R. J.; Wilson, W. D.; Dykstra, C. C.; Jones, S. K.; Hall, J. E.; Tidwell, R. R.; Laughton, C.; Nunn, C. M.; Neidle, S. D. J. Med. Chem. 1995, 38, 912.
43. Laughton, C. A.; Tanious, F.; Nunn, C. M.; Boykin, D. W.; Wilson, W. D.; Neidle, S. Biochemistry 1996, 35, 5655.
44. Ratmeyer, L.; Zapp, M.; Green, M.; Vinayak, R.; Kumar, A.; Boykin, D. W.; Wilson, W. D. Biochemistry 1996, 35, 13689.
45. Chandrasekaran, R.; Arnott, S. In Landolt-Börnstein, New series, Group VII; Saenger, W., Ed.; Springer-Verlag: Berlin, 1989; Vol. 1b, p 68.
46. Veal, J. M.; Wilson, W. D. J. Biomol. Struct. Dynam. 1991, 8, 1119.
47. Sambrook, J.; Fritsch, E. F.; Maniatis, T. In Molecular Cloning: A Laboratory Manual; Nolan, C., Ed.; Cold Spring Harbor Laboratory: Plainview, 1988; p 6.36.
48. Ragunathan, K. G.; Schneider, H.-J. Angew. Chem. Int. Ed. Engl. 1996, 35, 1219 and references therein.