Constitutive regulatory activity of an evolutionarily excluded riboswitch variant

Journal of Biological Chemistry

Volumn 286, Issue 31, 2011, Pages 27406-27415

  Tremblay, Renaud ^a   Lemay, Jean François ^a   Blouin, Simon ^a   Mulhbacher, Jérôme ^a   Bonneau, Éric ^b   Legault, Pascale ^b   Dupont, Paul ^c   Penedo, J Carlos ^c   Lafontaine, Daniel A ^a  

^a UNIVERSITÉ DE SHERBROOKE   (Canada)

^b UNIVERSITÉ DE MONTRÉAL   (Canada)

^c UNIVERSITY OF ST ANDREWS   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

APTAMERS; BASE PAIRS; BIOPHYSICAL TECHNIQUES; CONFORMATIONAL FREEDOM; DYNAMIC HETEROGENEITY; IN-VIVO; LIGAND BINDING; LIGAND-BINDING SITES; LIGAND-FREE STRUCTURES; LOW LEVEL; MONOVALENT IONS; PHYLOGENETIC CONSERVATION; RIBOSWITCHES; SINGLE-MOLECULE; WILD TYPES;

BINDING SITES; COMPLEXATION; GENE EXPRESSION; LIGANDS;

CRYSTAL STRUCTURE;

APTAMER;

ARTICLE; BASE PAIRING; BINDING AFFINITY; COMPLEX FORMATION; CONTROLLED STUDY; GENE ACTIVATION; GENE DISRUPTION; GENE EXPRESSION; GENETIC REGULATION; GENETIC VARIABILITY; IN VIVO STUDY; LIGAND BINDING; MOLECULAR DYNAMICS; MOLECULAR EVOLUTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN FOLDING; PROTEIN UNFOLDING; RIBOSWITCH; RNA CONFORMATION; WILD TYPE;

APTAMERS, NUCLEOTIDE; BASE SEQUENCE; BETA-GALACTOSIDASE; DNA PRIMERS; EVOLUTION, MOLECULAR; FLUORESCENCE RESONANCE ENERGY TRANSFER; MAGNETIC RESONANCE SPECTROSCOPY; NUCLEIC ACID CONFORMATION; RNA; TRANSCRIPTION, GENETIC;

EID: 79960991166     PISSN: 00219258     EISSN: 1083351X     Source Type: Journal    
DOI: 10.1074/jbc.M111.229047     Document Type: Article

References (49)

1. Serganov, A., and Patel, D. J. (2007) Nat. Rev. Genet 8, 776-790
2. Roth, A., and Breaker, R. R. (2009) Annu. Rev. Biochem. 78, 305-334
3. Montange, R. K., and Batey, R. T. (2008) Annu. Rev. Biophys. 37, 117-133
4. Nudler, E. (2006) Cell 126, 19-22
5. Serganov, A. (2009) Curr. Opin. Struct. Biol. 19, 251-259
6. Weinberg, Z., Barrick, J. E., Yao, Z., Roth, A., Kim, J. N., Gore, J., Wang, J. X., Lee, E. R., Block, K. F., Sudarsan, N., Neph, S., Tompa, M., Ruzzo, W. L., and Breaker, R. R. (2007) Nucleic Acids Res. 35, 4809-4819
7. Irnov, I., Sharma, C. M., Vogel, J., and Winkler, W. C. (2010) Nucleic Acids Res. 38, 6637-6651
8. Mandal, M., Boese, B., Barrick, J. E., Winkler, W. C., and Breaker, R. R. (2003) Cell 113, 577-586
9. Mandal, M., and Breaker, R. R. (2004) Nat. Struct. Mol. Biol. 11, 29-35
10. Christiansen, L. C., Schou, S., Nygaard, P., and Saxild, H. H. (1997) J. Bacteriol. 179, 2540-2550
11. Serganov, A., Yuan, Y. R., Pikovskaya, O., Polonskaia, A., Malinina, L., Phan, A. T., Hobartner, C., Micura, R., Breaker, R. R., and Patel, D. J. (2004) Chem. Biol. 11, 1729-1741
12. Batey, R. T., Gilbert, S. D., and Montange, R. K. (2004) Nature 432, 411-415
13. Gilbert, S. D., Stoddard, C. D., Wise, S. J., and Batey, R. T. (2006) J. Mol. Biol. 359, 754-768
14. Mulhbacher, J., and Lafontaine, D. A. (2007) Nucleic Acids Res. 35, 5568-5580
15. Lemay, J. F., and Lafontaine, D. A. (2007) RNA 13, 339-350
16. Delfosse, V., Bouchard, P., Bonneau, E., Dagenais, P., Lemay, J. F., Lafontaine, D. A., and Legault, P. (2010) Nucleic Acids Res. 38, 2057-2068
17. Lemay, J. F., Penedo, J. C., Tremblay, R., Lilley, D. M., and Lafontaine, D. A. (2006) Chem. Biol. 13, 857-868
18. Pleiss, J. A., Derrick, M. L., and Uhlenbeck, O. C. (1998)RNA 4, 1313-1317
19. Lemay, J. F., Desnoyers, G., Blouin, S., Heppell, B., Bastet, L., St-Pierre, P., Massé, E., and Lafontaine, D. A. (2011) PLoS Genet 7, e1001278
20. Blouin, S., Chinnappan, R., and Lafontaine, D. A. (2011) Nucleic Acids Res. 39, 3373-3387
21. Blouin, S., and Lafontaine, D. A. (2007) RNA 13, 1256-1267
22. Lafontaine, D. A., Wilson, T. J., Zhao, Z. Y., and Lilley, D. M. (2002) J. Mol. Biol. 323, 23-34
23. Clegg, R. M., Murchie, A. I., Zechel, A., Carlberg, C., Diekmann, S., and Lilley, D. M. (1992) Biochemistry 31, 4846-4856
24. Murchie, A. I., Clegg, R. M., von Kitzing, E., Duckett, D. R., Diekmann, S., and Lilley, D. M. (1989) Nature 341, 763-766
25. Piotto, M., Saudek, V., and Sklenár, V. (1992) J. Biomol. NMR 2, 661-665
26. Kay, L. E., Keifer, P., and Saarinen, T. (1992) J. Am. Chem. Soc. 114, 10663-10665
27. Zhang, O., Kay, L. E., Olivier, J. P., and Forman-Kay, J. D. (1994) J. Biomol. NMR 4, 845-858
28. Delaglio, F., Grzesiek, S., Vuister, G. W., Zhu, G., Pfeifer, J., and Bax, A. (1995) J. Biomol. NMR 6, 277-293
29. Johnson, B. A., and Blevins, R. A. (1994) J. Biomol. NMR 4, 603-614
30. Macke, T. J., Ecker, D. J., Gutell, R. R., Gautheret, D., Case, D. A., and Sampath, R. (2001) Nucleic Acids Res. 29, 4724-4735
31. Merino, E. J., Wilkinson, K. A., Coughlan, J. L., and Weeks, K. M. (2005) J. Am. Chem. Soc. 127, 4223-4231
32. Stoddard, C. D., Gilbert, S. D., and Batey, R. T. (2008) RNA 14, 675-684
33. Garst, A. D., Héroux, A., Rambo, R. P., and Batey, R. T. (2008) J. Biol. Chem. 283, 22347-22351
34. Ward, D. C., Reich, E., and Stryer, L. (1969) J. Biol. Chem. 244, 1228-1237
35. Gilbert, S. D., Love, C. E., Edwards, A. L., and Batey, R. T. (2007) Biochemistry 46, 13297-13309
36. Stoddard, C. D., Montange, R. K., Hennelly, S. P., Rambo, R. P., Sanbonmatsu, K. Y., and Batey, R. T. (2010) Structure 18, 787-797
37. Edwards, A. L., and Batey, R. T. (2009) J. Mol. Biol. 385, 938-948
38. Gilbert, S. D., and Batey, R. T. (2006) Chem. Biol. 13, 805-807
39. Brenner, M. D., Scanlan, M. S., Nahas, M. K., Ha, T., and Silverman, S. K. (2010) Biochemistry 49, 1596-1605
40. Noeske, J., Schwalbe, H., and Wöhnert, J. (2007) Nucleic Acids Res. 35, 5262-5273
41. Heppell, B., Blouin, S., Dussault, A. M., Mulhbacher, J., Ennifar, E., Penedo, J. C., and Lafontaine, D. A. (2011) Nat. Chem. Biol. 7, 384-392
42. Kim, J. N., Blount, K. F., Puskarz, I., Lim, J., Link, K. H., and Breaker, R. R. (2009) ACS Chem. Biol. 4, 915-927
43. Blount, K. F., Wang, J. X., Lim, J., Sudarsan, N., and Breaker, R. R. (2007) Nat. Chem. Biol. 3, 44-49
44. Blount, K. F., and Breaker, R. R. (2006) Nat. Biotechnol. 24, 1558-1564
45. Mulhbacher, J., Brouillette, E., Allard, M., Fortier, L. C., Malouin, F., and Lafontaine, D. A. (2010) PLoS Pathog. 6, e1000865
46. Lafontaine, D. A., Norman, D. G., and Lilley, D. M. (2001) EMBO J. 20, 1415-1424
47. Lafontaine, D. A., Norman, D. G., and Lilley, D. M. (2002) EMBO J. 21, 2461-2471
48. Bassi, G. S., Murchie, A. I., Walter, F., Clegg, R. M., and Lilley, D. M. (1997) EMBO J. 16, 7481-7489
49. Wittenhagen, L. M., and Kelley, S. O. (2003) Trends Biochem. Sci. 28, 605-611