Optical spectroscopic study of the effects of a single deoxyribose substitution in a ribose backbone: Implications in RNA-RNA interaction

Biochemistry

Volumn 39, Issue 7, 2000, Pages 1693-1701

  Lindqvist, Martina ^a   Sarkar, Munna ^b   Winqvist, Anna ^c   Rozners, Eriks ^c   Strömberg, Roger ^c   Gräslund, Astrid ^a  

^a STOCKHOLM UNIVERSITY   (Sweden)

^b SAHA INSTITUTE OF NUCLEAR PHYSICS   (India)

^c KAROLINSKA INSTITUTE   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYRIBOSE; OLIGORIBONUCLEOTIDE; RIBOSE; RNA;

ARTICLE; CIRCULAR DICHROISM; CONFORMATION; HYDROGEN BOND; INFRARED SPECTROSCOPY; LIGHT ABSORPTION; MOLECULAR INTERACTION; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL;

BASE COMPOSITION; CIRCULAR DICHROISM; DEOXYRIBOSE; FURANS; NUCLEIC ACID CONFORMATION; NUCLEIC ACID HETERODUPLEXES; OLIGODEOXYRIBONUCLEOTIDES; RIBOSE; RNA; RNA, DOUBLE-STRANDED; SPECTROPHOTOMETRY, ULTRAVIOLET; SPECTROSCOPY, FOURIER TRANSFORM INFRARED; SUGAR PHOSPHATES;

EID: 0034701059     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi992055n     Document Type: Article

References (46)

1. Egli, M., Portmann, S., and Usman, N. (1996) Biochemistry 35, 8489-8494.
2. Cheatham, T. E., and Kollman, P. A. (1997) J. Am. Chem. Soc. 119, 4805-4825.
3. Thibaudeau, C., Plavec, J., Garg, N., Papchikhin, A., and Chattopadhyaya, J. (1994) J. Am. Chem. Soc. 116, 4038-4043.
4. Plavec, J., Thibaudeau, C., and Chattopadhyaya, J. (1994) J. Am. Chem. Soc. 116, 6558-6560.
5. Wyatt, J. R., and Tinoco, I., Jr. (1993) in The RNA World (Gesteland, R. F., and Atkins, J. F., Eds.) pp 465-496, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
6. Holbrook, S. R. (1998) in RNA Structure and Function (Simons, R. W., and Grunberg-Manago, M., Eds.) pp 147-174, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
7. Ban, C., Ramakrishnan, B., and Sundaralingam, M. (1994) J. Mol. Biol. 236, 275-285.
8. Egli, M., Usman, N., and Rich, A. (1993) Biochemistry 32, 3221-3237.
9. Perreault, J. P., Labuda, D., Usman, N., Yang, J. H., and Cedergren, R. (1991) Biochemistry 30, 4020-4025.
10. Chowrira, B. M., Berzalherranz, A., Keller, C. F., and Burke, J. M. (1993) J. Biol. Chem. 268, 19458-19462.
11. Loria, A., and Pan, T. (1997) Biochemistry 36, 6317-6325.
12. Bevilacqua, P. C., and Turner, D. H. (1991) Biochemistry 30, 10632-10640.
13. Pyle, A. M., and Cech, T. R. (1991) Nature 350, 628-631.
14. Herschlag, D., Eckstein, F., and Cech, T. R. (1993) Biochemistry 32, 8299-8311.
15. Strobel, S. A., and Cech, T. R. (1993) Biochemistry 32, 13593-13604.
16. Narlikar, G. J., Khosla, M., Usman, N., and Herschlag, D. (1997) Biochemistry 36, 2465-2477.
17. Whoriskey, S. K., Usman, N., and Szostak, J. W. (1995) Proc. Natl. Acad. Sci. U.S.A. 92, 2465-2469.
18. Michel, F., and Westhof, E. (1990) J. Mol. Biol. 216, 585-610.
19. Sarkar, M., Sigurdsson, S., Tomac, S., Sen, S., Rozners, E., Sjöberg, B. M., Strömberg, R., and Gräslund, A. (1996) Biochemistry 35, 4678-4688.
20. Sarkar, M., Dornberger, U., Rozners, E., Fritzsche, H., Strömberg, R., and Gräslund, A. (1997) Biochemistry 36, 15463-15471.
21. Strömberg, R., and Stawinski, J. (1999) in Current Protocols in Nucleic Acid Chemistry (Beaucage, S., Ed.) Unit 3.4, Wiley, New York (in press).
22. Mccollum, C., and Andrus, A. (1991) Tetrahedron Lett. 32, 4069-4072.
23. Puglisi, J. D., and Tinoco, I., Jr. (1989) Methods Enzymol. 180, 304-325.
24. Johnson, W. C., Jr. (1985) Methods Biochem. Anal. 31, 61-163.
25. Gray, D. M., Ratliff, R. L., and Vaughan, M. R. (1992) Methods Enzymol. 211, 389-406.
26. Tsuboi, M. (1969) in Applied Spectroscopy Reviews (Brame, E. G. J., Ed.) Vol. 3, pp 45-90, Marcel Dekker, New York.
27. Dagneaux, C., Liquier, J., Scaria, P. V., Shafer, R. H., and Taillandier, E. (1994) in Structural Biology: The State of Art, Proceedings of the VIIIth Conversion, State University of New York, Albany, New York, 1993 (Sarma, R. H., and Sarma, M. H., Eds.) pp 103-111, Adenine Press, Schenectady, NY.
28. Taboury, J. A., Liquier, J., and Taillandier, E. (1985) Can. J. Chem. 63, 1904-1909.
29. Dagneaux, C., Liquier, J., and Taillandier, E. (1995) Biochemistry 34, 14815-14818.
30. Abdelkafi, M., Leulliot, N., Baumruk, V., Bednarova, L., Turpin, P. Y., Namane, A., Gouyette, C., Huynh-Dinh, T., and Ghomi, M. (1998) Biochemistry 37, 7878-7884.
31. Taillandier, E., and Liquier, J. (1992) Methods Enzymol. 211, 307-335.
32. Mohammadi, S., Klement, R., Shchyolkina, A. K., Liquier, J., Jovin, T. M., and Taillandier, E. (1998) Biochemistry 37, 16529-16537.
33. Letellier, R., Ghomi, M., and Taillandier, E. (1986) J. Biomol. Struct. Dyn. 3, 671-687.
34. Letellier, R., Ghomi, M., and Taillandier, E. (1987) J. Biomol. Struct. Dyn. 4, 663-683.
35. White, A. P., and Powell, J. W. (1995) Biochemistry 34, 1137-1142.
36. Dagneaux, C., Liquier, J., and Taillandier, E. (1995) Biochemistry 34, 16618-16623.
37. Liquier, J., Akhebat, A., Taillandier, E., Ceolin, F., Dinh, T. H., and Igolen, J. (1991) Spectrochim. Acta, Part A: Mol. Biomol. Spectrosc. 47, 177-186.
38. Taillandier, E., Ridoux, J. P., Liquier, J., Leupin, W., Denny, W. A., Wang, Y., Thomas, G. A., and Peticolas, W. L. (1987) Biochemistry 26, 3361-3368.
39. Guan, Y., and Thomas, G. J., Jr. (1996) Biopolymers 39, 813-835.
40. Dohy, D., Ghomi, M., and Taillandier, E. (1989) J. Biomol. Struct. Dyn. 6, 741-754.
41. Letellier, R., Ghomi, M., and Taillandier, E. (1989) J. Biomol. Struct. Dyn. 6, 755-768.
42. Liquiers, J., Taillandier, E., Peticolas, W. L., and Thomas, G. A. (1990) J. Biomol. Struct. Dyn. 8, 295-302.
43. Liquier, J., Coffinier, P., Firon, M., and Taillandier, E. (1991) J. Biomol. Struct. Dyn. 9, 437-445.
44. Ouali, M., Letellier, R., Sun, J. S., Akhebat, A., Adnet, F., Liquier, J., and Taillandier, E. (1993) J. Am. Chem. Soc. 115, 4264-4270.
45. Holbrook, J. A., Capp, M. W., Saecker, R. M., and Record, M. T., Jr. (1999) Biochemistry 38, 8409-8422.
46. Silverman, S. K., and Cech, T. R. (1999) Biochemistry 38, 8691-8702.