Structure of a class II preQ1 riboswitch reveals ligand recognition by a new fold

Nature Chemical Biology

Volumn 9, Issue 6, 2013, Pages 353-355

  Liberman, Joseph A ^a   Salim, Mohammad ^a   Krucinska, Jolanta ^a   Wedekind, Joseph E ^a  

^a UNIVERSITY OF ROCHESTER SCHOOL OF MEDICINE AND DENTISTRY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

LIGAND; PREQ1; RNA; UNCLASSIFIED DRUG;

ARTICLE; CONTROLLED STUDY; GENE CONTROL; LIGAND BINDING; MOLECULAR RECOGNITION; NONHUMAN; NUCLEOTIDE BINDING SITE; PRIORITY JOURNAL; PROTEIN RNA BINDING; REGULATORY RNA SEQUENCE; RIBOSWITCH; RNA TRANSLATION; SIGNAL TRANSDUCTION;

BINDING SITES; CALORIMETRY; KINETICS; LACTOBACILLUS RHAMNOSUS; LIGANDS; MODELS, CHEMICAL; NUCLEIC ACID CONFORMATION; PROTEIN BINDING; PROTEIN FOLDING; PROTEIN STRUCTURE, SECONDARY; RIBOSWITCH; RNA; RNA, MESSENGER; X-RAY DIFFRACTION;

EID: 84879103214     PISSN: 15524450     EISSN: 15524469     Source Type: Journal    
DOI: 10.1038/nchembio.1231     Document Type: Article

References (35)

1. Bastet, L., Dube, A., Masse, E. & Lafontaine, D.A. Mol. Microbiol. 80, 1148-1154 (2011).
2. Batey, R.T. Wiley Interdiscip. Rev. RNA 2, 299-311 (2011).
3. Batey, R.T. Q. Rev. Biophys. 45, 345-381 (2012).
4. Breaker, R.R. Cold Spring Harb. Perspect. Biol. 4, a003566 (2012).
5. Bienz, M. & Kubli, E. Nature 294, 188-190 (1981).
6. Yokoyama, S. et al. Nature 282, 107-109 (1979).
7. Noguchi, S., Nishimura, Y., Hirota, Y. & Nishimura, S. J. Biol. Chem. 257, 6544-6550 (1982).
8. Durand, J.M. et al. J. Bacteriol. 176, 4627-4634 (1994).
9. Roth, A. et al. Nat. Struct. Mol. Biol. 14, 308-317 (2007).
10. Meyer, M.M., Roth, A., Chervin, S.M., Garcia, G.A. & Breaker, R.R. RNA 14, 685-695 (2008).
11. Weinberg, Z. et al. Nucleic Acids Res. 35, 4809-4819 (2007).
12. Jenkins, J.L., Krucinska, J., McCarty, R.M., Bandarian, V. & Wedekind, J.E. J. Biol. Chem. 286, 24626-24637 (2011).
13. Klein, D.J., Edwards, T.E. & Ferre-D'Amare, A.R. Nat. Struct. Mol. Biol. 16, 343-344 (2009).
14. Kang, M., Peterson, R. & Feigon, J. Mol. Cell 33, 784-790 (2009).
15. Hoops, G.C., Park, J., Garcia, G.A. & Townsend, L.B. J. Heterocycl. Chem. 33, 767-781 (1996).
16. Trausch, J.J., Ceres, P., Reyes, F.E. & Batey, R.T. Structure 19, 1413-1423 (2011).
17. Huang, L., Ishibe-Murakami, S., Patel, D.J. & Serganov, A. Proc. Natl. Acad. Sci. USA 108, 14801-14806 (2011).
18. Gilbert, S.D., Rambo, R.P., Van Tyne, D. & Batey, R.T. Nat. Struct. Mol. Biol. 15, 177-182 (2008).
19. Theimer, C.A., Blois, C.A. & Feigon, J. Mol. Cell 17, 671-682 (2005).
20. Deigan, K.E. & Ferre-D'Amare, A.R. Acc. Chem. Res. 44, 1329-1338 (2011).
21. McCarty, R.M. & Bandarian, V. Bioorg. Chem. 43, 15-25 (2012).
22. Grosjean, H., de Crécy-Lagard, V. & Björk, G.R. Trends Biochem. Sci. 29, 519-522 (2004).
23. Lippa, G.M. et al. Methods Mol. Biol. 848, 159-184 (2012).
24. Altschul, S.F., Gish, W., Miller, W., Myers, E.W. & Lipman, D.J. J. Mol. Biol. 215, 403-410 (1990).
25. Morita, H. et al. J. Bacteriol. 191, 7630-7631 (2009).
26. Avlami, A., Kordossis, T., Vrizidis, N. & Sipsas, N.V. J. Infect. 42, 283-285 (2001).
27. Akimoto, H., Imamiya, E., Hitaka, T., Nomura, H. & Nishimura, S. J. Chem. Soc. Perkin Trans. 1 1637-1644 (1988).
28. Otwinowski, Z. & Minor, W. Methods Enzymol. 276, 307-326 (1997).
29. Adams, P.D. et al. Acta Crystallogr. D Biol. Crystallogr. 66, 213-221 (2010).
30. Emsley, P., Lohkamp, B., Scott, W.G. & Cowtan, K. Acta Crystallogr. D Biol. Crystallogr. 66, 486-501 (2010).
31. Klepper, F., Polborn, K. & Carell, T. Helv. Chim. Acta 88, 2610-2616 (2005).
32. Wedekind, J.E. Met. Ions Life Sci. 9, 299-345 (2011).
33. Pettersen, E.F. et al. J. Comput. Chem. 25, 1605-1612 (2004).
34. Soukup, G.A. & Breaker, R.R. RNA 5, 1308-1325 (1999).
35. Das, R., Laederach, A., Pearlman, S.M., Herschlag, D. & Altman, R.B. RNA 11, 344-354 (2005).