Restricting the conformational heterogeneity of RNA by specific incorporation of 8-bromoguanosine

Journal of the American Chemical Society

Volumn 125, Issue 9, 2003, Pages 2390-2391

  Proctor, David J ^a   Kierzek, Elzbieta ^b   Kierzek, Ryszard ^b   Bevilacqua, Philip C ^a  

^a PENNSYLVANIA STATE UNIVERSITY   (United States)

^b INSTITUTE OF BIOORGANIC CHEMISTRY   (Poland)

Author keywords

[No Author keywords available]

Indexed keywords

8 BROMOGUANOSINE; ANTISENSE OLIGODEOXYNUCLEOTIDE; RNA;

ARTICLE; CELL HETEROGENEITY; CONFORMATION; GENE SEQUENCE; NUCLEAR MAGNETIC RESONANCE; PHOSPHORUS NUCLEAR MAGNETIC RESONANCE; PROTEIN INTERACTION; PROTEIN SECONDARY STRUCTURE; PROTEIN TERTIARY STRUCTURE; PROTON NUCLEAR MAGNETIC RESONANCE; SITE DIRECTED MUTAGENESIS; X RAY CRYSTALLOGRAPHY;

EID: 0242500942     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja029176m     Document Type: Article

References (27)

1. (a) Costa, M.; Michel, F. EMBO J. 1995, 14, 1276.
2. (b) Brion, P.; Westhof, E. Annu. Rev. Biophys. Biomol. 1997, 26, 113.
3. (c) Tinoco, I., Jr.; Bustamante, C. J. Mol. Biol. 1999, 293, 271.
4. (a) Scott, W. G.; Murray, J. B.; Arnold, J. R.; Stoddard, B. L.; Klug, A. Science 1996, 274, 2065.
5. (b) Ferre-D'Amare, A. R.; Zhou, K.; Doudna, J. A. Nature 1998, 395, 567.
6. (c) Rupert, P. B.; Massey, A. P.; Th Sigurdsson, S.; Ferre-D'Amare, A. R. Science 2002, 298, 1421.
7. (a) Pan, J.; Woodson, S. A. J. Mol. Biol. 1998, 280, 597.
8. (b) Treiber, D. K.; Williamson, J. R. Curr. Opin. Struct. Biol. 2001, 11, 309.
9. (c) Chadalavada, D. M.; Knudsen, S. M.; Nakano, S.; Bevilacqua, P. C. J. Mol. Biol. 2000, 301, 349.
10. (d) Chadalavada, D. M.; Senchak, S. E.; Bevilacqua, P. C. J. Mol. Biol. 2002, 317, 559.
11. Olivas, W. M.; Maher, L. J., III. Nucleic Acids Res. 1995, 23 1936.
12. For example (a) Tsuchihashi, Z.; Khosla, M.; Herschlag, D. Science 1993, 262, 99.
13. (b) Mohr, S.; Stryker, J. M.; Lambowitz, A. M. Cell 2002, 109, 769.
14. (c) Lorsch, J. R. Cell 2002, 109, 797.
15. Proctor, D. J.; Schaak, J. E.; Bevilacqua, J. M.; Falzone, C. J.; Bevilacqua. P. C. Biochemistry 2002, 41, 12062.
16. Holbrook, S. R.; Cheong, C.; Tinoco, I., Jr.; Kim, S. H. Nature 1991, 353, 579.
17. (a) Tavale, S. S.; Sobell, H. M. J. Mol. Biol. 1970, 48, 109.
18. (b) Michelson, A. M.; Monny, C.; Kapuler, A. M. Biochim. Biophys. Acta 1970, 217, 7.
19. (c) Ikehara, M.; Uesugi, S.; Yoshida, K. Biochemistry 1972, 11, 830.
20. Varani, G.; Cheong, C.; Tinoco, I., Jr. Biochemistry 1991, 30, 3280.
21. See Supporting Information for experimental details.
22. 31P NMR, Principles and Applications; Academic Press: New York, 1984.
23. M of CGCG is concentration dependent between ≈50-200 μM strand concentration.
24. + since it is perfectly complementary, and its shift in equilibrium is not in the detectable range for NMR.
25. In general, for a given imino proton in a small RNA hairpin the resonance for the hairpin conformation is slightly downfield of that for the duplex conformation. See ref 6 for further examples.
26. The precise value of the chemical shift has been found to be slightly larger when position 1 of the loop is a C. See ref 6 for details.
27. Correll, C. C.; Freeborn, B.; Moore, P. B.; Steitz, T. A. J. Biomol. Struct. Dyn. 1997, 15, 165.