13C-detection in RNA bases: Revealing structure-chemical shift relationships

Journal of the American Chemical Society

Volumn 129, Issue 51, 2007, Pages 15814-15823

  Farès, Christophe ^a   Amata, Irene ^a   Carlomagno, Teresa ^a  

^a MAX PLANCK INSTITUTE FOR BIOPHYSICAL CHEMISTRY   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

ALKALINITY; CHEMICAL SHIFT; MOLECULAR STRUCTURE; PERTURBATION TECHNIQUES; PROTONATION;

BASE-STACKING PROPERTIES; RNA BASES; STRUCTURE-CHEMICAL SHIFT;

RNA;

CARBON 13; NITROGEN 15; RNA; VIRUS RNA; CARBON;

ANALYTIC METHOD; ARTICLE; BASE PAIRING; CARBON NUCLEAR MAGNETIC RESONANCE; CONFORMATION; CORRELATION ANALYSIS; RNA SEQUENCE; RNA STRUCTURE; CHEMISTRY; NUCLEAR MAGNETIC RESONANCE; NUCLEOTIDE SEQUENCE;

BASE SEQUENCE; CARBON ISOTOPES; NUCLEAR MAGNETIC RESONANCE, BIOMOLECULAR; NUCLEIC ACID CONFORMATION; RNA;

EID: 37549037516     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja0727417     Document Type: Article

References (50)

1. Berman, H. M.; et al. Acta Crystallogr., Sect. D: Biol. Crystallogr. 2002, 58, 899-907.
2. Berman, H. M.; Olson, W. K.; Beveridge, D. L.; Westbrook, J.; Gelbin, A.; Demeny, T.; Hsieh, S. H.; Srinivasan, A. R.; Schneider, B. Biophys. J. 1992, 63, 751-759.
3. Murthy, V. L.; Rose, G. D. Nucleic Acids Res. 2003, 31, 502-504.
4. Legault, P.; Farmer, B. T.; Mueller, L.; Pardi, A. J. Am. Chem. Soc. 1994, 116, 2203-2204.
5. Marino, J. P.; Prestegard, J. H.; Crothers, D. M. J. Am. Chem. Soc. 1994, 116, 2205-2206.
6. Simorre, J. P.; Zimmermann, G. R.; Mueller, L.; Pardi, A. J. Biomol. NMR 1996, 7, 153-156.
7. Simon, B.; Zanier, K.; Sattler, M. J. Biomol. NMR 2001, 20, 173-6.
8. Jaroniec, C. P.; Boisbouvier, J.; Tworowska, I.; Nikonowicz, E. P.; Bax, A. J. Biomol. NMR 2005, 31, 231-241.
9. Boisbouvier, J.; Bryce, D. L.; O'Neil-Cabello, E.; Nikonowicz, E. P.; Bax, A. J. Biomol. NMR 2004, 30, 287-301.
10. Hennig, M.; Carlomagno, T.; Williamson, J. R. J. Am. Chem. Soc. 2001, 123, 3395-3396.
11. Yan, J. L.; Corpora, T.; Pradhan, P.; Bushweller, J. H. J. Biomol. NMR 2002, 22, 9-20.
12. Zidek, L.; Wu, H. H.; Feigon, J.; Sklenar, V. J. Biomol. NMR 2001, 21, 153-160.
13. Seavey, B. R.; Farr, E. A.; Westler, W. M.; Markley, J. L. J. Biomol. NMR 1991, 1, 217-36.
14. Fiala, R.; Munzarova, M. L.; Sklenar, V. J. Biomol. NMR 2004, 29, 477-490.
15. Furtig, B.; Richter, C.; Bermel, W.; Schwalbe, H. J. Biomol. NMR 2004, 28, 69-79.
16. Wishart, D. S.; Sykes, B. D. J. Biomol. NMR 1994, 4, 171-180.
17. Wishart, D. S.; Sykes, B. D. Methods Enzymol. 1994, 239, 363-392.
18. Ebrahimi, M.; Rossi, P.; Rogers, C.; Harbison, G. S. J. Magn. Reson. 2001, 150, 1-9.
19. Rossi, P.; Harbison, G. S. J. Magn. Reson. 2001, 151, 1-8.
20. Rossi, P.; Harbison, G. S. Biophys. J. 1999, 76, A319-a319.
21. Cromsigt, J. A.; Hilbers, C. W.; Wijmenga, S. S. J. Biomol. NMR 2001, 21, 11-29.
22. Xu, X. P.; Au-Yeung, S. C. F. J. Phys. Chem. B 2000, 104, 5641-5650.
23. Bermel, W.; Bertini, I.; Felli, I. C.; Kummerle, R.; Pierattelli, R. J. Am. Chem. Soc. 2003, 125, 16423-16429.
24. Bermel, W.; Bertini, I.; Felli, I. C.; Kummerle, R.; Pierattelli, R. J. Magn. Reson. 2006, 178, 56-64.
25. Bermel, W.; Bertini, I.; Felli, I. C.; Lee, Y. M.; Luchinat, C.; Pierattelli, R. J. Am. Chem. Soc. 2006, 128, 3918-3919.
26. Bermel, W.; Bertini, I.; Felli, I. C.; Piccioli, M.; Pierattelli, R. Prog. Nucl. Magn. Reson. Spectrosc. 2006, 48, 25-45.
27. Bertini, I.; Duma, L.; Felli, I. C.; Fey, M.; Luchinat, C.; Pierattelli, R.; Vasos, P. R. Angew. Chem., Int. Ed. 2004, 43, 2257-2259.
28. Bertini, I.; Felli, I. C.; Kummerle, R.; Moskau, D.; Pierattelli, R. J. Am. Chem. Soc. 2004, 126, 464-465.
29. Bertini, I.; Jimenez, B.; Piccioli, M.; Poggi, L. J. Am. Chem. Soc. 2005, 127, 12216-12217.
30. Bertini, I.; Jimenez, B.; Piccioli, M. J. Magn. Reson. 2005, 174, 125-132.
31. Bertini, I.; Luchinat, C.; Parigi, G.; Pierattelli, R. ChemBioChem 2005, 6, 1536-1549.
32. Kovacs, H.; Moskau, D.; Spraul, M. Prog. Nucl. Magn. Reson. Spectrosc. 2005, 46, 131-155.
33. Shimba, N.; Kovacs, H.; Stern, A. S.; Nomura, A. M.; Shimada, I.; Hoch, J. C.; Craik, C. S.; Dotsch, V. J. Biomol. NMR 2004, 30, 175-9.
34. Fiala, R.; Sklenar, V. J. Biomol. NMR 2007, 39, 153-163.
35. Wei, P.; Garber, M. E.; Fang, S. M.; Fischer, W. H.; Jones, K. A. Cell 1998, 92, 451-62.
36. Aboul-ela, F.; Karn, J.; Varani, G. Nucleic Acids Res. 1996, 24, 3974-81.
37. Brodsky, A. S.; Williamson, J. R. J. Mol. Biol. 1997, 267, 624-39.
38. Colvin, R. A.; White, S. W.; Garcia-Blanco, M. A.; Hoffman, D. W. Biochemistry 1993, 32, 1105-12.
39. Du, Z.; Lind, K. E.; James, T. L. Chem. Biol. 2002, 9, 707-12.
40. Faber, C.; Sticht, H.; Schweimer, K.; Rosch, P. J. Biol. Chem. 2000, 275, 20660-20666.
41. Jaeger, J. A.; Tinoco, I. Biochemistry 1993, 32, 12522-12530.
42. Raghunathan, D.; Sanchez-Pedregal, V. M.; Junker, J.; Schwiegk, C.; Kalesse, M.; Kirschning, A.; Carlomagno, T. Nucleic Acids Res. 2006, 34, 3599-608.
43. Richter, S.; Cao, H.; Rana, T. M. Biochemistry 2002, 41, 6391-7.
44. Milligan, J. F.; Groebe, D. R.; Witherell, G. W.; Uhlenbeck, O. C. Nucleic Acids Res. 1987, 15, 8783-8798.
45. Ottiger, M.; Delaglio, F.; Bax, A. J. Magn. Reson. 1998, 131, 373-378.
46. Duma, L.; Hediger, S.; Lesage, A.; Emsley, L. J. Magn. Reson. 2003, 164, 187-195.
47. Delaglio, F.; Grzesiek, S.; Vuister, G. W.; Zhu, G.; Pfeifer, J.; Bax, A. J. Biomol. NMR 1995, 6, 277-293.
48. Goddard, T. D.; Kneller, D. G. SPARKY3; University of California, San Francisco, 2001.
49. Tycko, R.; Pines, A.; Guckenheimer, J. J. Chem. Phys. 1985, 83, 2775-2802.
50. Puglisi, J. D.; Tan, R.; Calnan, B. J.; Frankel, A. D.; Williamson, J. R. Science 1992, 257, 76-80.