G·A and U·U mismatches can stabilize RNA internal loops of three nucleotides

Biochemistry

Volumn 35, Issue 50, 1996, Pages 16105-16109

  Schroeder, Susan ^a   Kim, James ^a   Turner, Douglas H ^a  

^a UNIVERSITY OF ROCHESTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENINE; DOUBLE STRANDED RNA; GUANINE; OLIGORIBONUCLEOTIDE; RNA; URACIL;

ARTICLE; CHEMISTRY; COMPARATIVE STUDY; DNA BASE COMPOSITION; NUCLEOTIDE SEQUENCE; STRUCTURE ACTIVITY RELATION; SYNTHESIS; THERMODYNAMICS; BASE MISPAIRING; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; PRIORITY JOURNAL; RNA DEGRADATION; RNA SEQUENCE; RNA STRUCTURE; RNA SYNTHESIS; SPECTROPHOTOMETRY; THIN LAYER CHROMATOGRAPHY;

ADENINE; BASE COMPOSITION; BASE SEQUENCE; GUANINE; OLIGORIBONUCLEOTIDES; RNA; RNA, DOUBLE-STRANDED; STRUCTURE-ACTIVITY RELATIONSHIP; THERMODYNAMICS; URACIL;

EID: 0030299990     PISSN: 00062960     EISSN: None     Source Type: Journal    
DOI: 10.1021/bi961789m     Document Type: Article

References (30)

1. Borer, P. N., (1975) in Handbook of Biochemistry and Molecular Biology: Nucleic Acids, 34d ed. (Fasman, G. D., Ed.) Vol. 1, p 597, CRC Press, Cleveland, OH.
2. Borer, P. N. Dengler, B., Tinoco, I., Jr., & Uhlenbeck, O. C. (1974) J. Mol. Biol. 86, 843-853.
3. Damberger, S. H., & Gutell, R. R. (1994) Nucleic Acids Res. 22, 3508-3510.
4. Egebjerg, J., Christiansen, J., Brown, R. S., Larsen, N., & Garrett, R. A. (1989) J. Mol. Biol. 206, 651-668.
5. Freier, S. M., Kierzek, R., Jaeger, J. A., Sugimoto, N., Caruthers, M. H., Neilson, T., & Turner, D. H. (1986a) Proc. Natl. Acad. Sci. U.S.A. 83, 9373-9377.
6. Freier, S. M., Sugimoto, N., Sinclair, A., Alkema, D., Neilson, T., Kierzek, R., Caruthers, M. H., & Turner, D. H. (1986b) Biochemistry 25, 3214-3219.
7. Gralla, J., & Crothers, D. M. (1973) J. Mol. Biol. 78, 301-319.
8. Damberger, S. H., & Gutell, R. R. (1994) Nucleic Acids Res. 21, 3508-3510.
9. Gutell, R. R. (1994) Nucleic Acids Res. 22, 3502-3507.
10. Gutell, R. R., Damberger, S. H., Gray, M. W., & Schnare, M. N. (1993) Nucleic Acids Res. 21, 3055-3074.
11. Han, K., & Kim. H. (1993) Nucleic Acids Res. 21, 1251-1257.
12. Jaeger, J. A., Turner, D. H., & Zuker, M. (1989) Proc. Natl. Acad. Sci. U.S.A. 86, 7706-7710.
13. Le, S.-Y., Pattabiraman, N., & Maizel, J. V., Jr. (1994) Nucleic Acids Res. 22, 3966-3976.
14. Lück, R., Steger, G., & Riesner, D. (1996) J. Mol. Biol. 258, 813-826.
15. McCammon, J. A., & Harvey, S. C. (1987) Dynamics of Proteins and Nucleic Acids, Cambridge University Press, Cambridge, U.K.
16. Peritz, A. E., Kierzek, R., Sugimoto, N., & Turner, D. H. (1991) Biochemistry 30, 6428-6436.
17. Petersheim, M., & Turner, D. H. (1983) Biochemistry 22, 256-263.
18. SantaLucia, J., Jr., & Turner D. H. (1993) Biochemistry 32, 12612-12623.
19. SantaLucia, J., Jr., Kierzek, R., & Turner, D. H. (1991a) J. Am. Chem. Soc. 113, 4313-4322.
20. SantaLucia, J., Jr., Kierzek, R., & Turner, D. H. (1991b) Biochemistry 30, 8242-8251.
21. Scaringe, S. A., Francklyn, C., & Usman, N. (1990) Nucleic Acids Res. 18, 5433-5441.
22. Serra, M. J., & Turner, D. H. (1995) Methods Enzymol. 259, 242-261.
23. Turner, D. H., Sugimoto, N., & Freier, S. M. (1988) Amu. Rev. Biophys. Biophys. Chem. 17, 167-192.
24. Usman, N., Ogilvie, K. K., Jiang, M. Y., & Cedergren, R. J. (1987) J. Am. Chem. Soc. 109, 7845-7854.
25. Walter, A. E., Turner, D. H., Kim, J., Lyttle, M. H., Müller, P., Matthews, D. H., & Zuker, M. (1994a) Proc. Natl. Acad. Sci. U.S.A. 91, 9218-9222.
26. Walter, A. E., Wu, M., & Turner, D. H. (1994b) Biochemistry 33, 11349-11354.
27. Watson, J. D., Hopkins, N. H., Roberts, J. W., Steitz, J. A., & Weiner, A. M. (1987) Molecular Biology of the Gene, 4th ed., Benjamin/Cummings Publishing Co., Menlo Park, CA.
28. Weeks, K. M., & Crothers, D. M. (1993) Science 261, 1574-1577.
29. Wu, M., McDowell, J. A., & Turner, D. H. (1995) Biochemistry 34, 3204-3211.
30. Wyatt, J. R., & Tinoco, I., Jr. (1993) in The RNA World (Gesteland, R. F., & Atkins, J. F., Eds.) pp 465-496, Cold Spring Harbor Laboratory Press, Plainview, New York.