NSET molecular beacon analysis of hammerhead RNA substrate binding and catalysis

Nano Letters

Volumn 6, Issue 7, 2006, Pages 1318-1324

  Jennings, T L ^a   Schlatterer, J C ^a   Singh, M P ^a   Greenbaum, N L ^a   Strouse, G F ^a  

^a FLORIDA STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BEACON/RULER; FLUOROPHORE; MG2+; NANOMETAL SURFACE ENERGY TRANSFER (NSET);

CATALYSIS; CONFORMATIONS; ENERGY TRANSFER; MEASUREMENT THEORY; NANOSTRUCTURED MATERIALS; ORGANIC COMPOUNDS;

RNA;

FLUORESCENT DYE; GOLD; HAMMERHEAD RIBOZYME; MAGNESIUM; NANOMATERIAL; RIBOZYME;

ARTICLE; CATALYSIS; CHEMISTRY; ENERGY TRANSFER; ENZYME SPECIFICITY; FLUORESCENCE RESONANCE ENERGY TRANSFER; GENETICS; KINETICS; METABOLISM; PROTEIN BINDING; PROTEIN SECONDARY STRUCTURE;

CATALYSIS; ENERGY TRANSFER; FLUORESCENCE RESONANCE ENERGY TRANSFER; FLUORESCENT DYES; GOLD; KINETICS; MAGNESIUM; NANOSTRUCTURES; PROTEIN BINDING; PROTEIN STRUCTURE, SECONDARY; RNA, CATALYTIC; SUBSTRATE SPECIFICITY;

EID: 33746909455     PISSN: 15306984     EISSN: None     Source Type: Journal    
DOI: 10.1021/nl052458a     Document Type: Article

References (36)

1. Michalet, X.; Pinaud, F. F.; Bentolila, L. A.; Tsay, J. M.; Doose, S.; Li, J. J.; Sundaresan, G.; Wu, A. M.; Gambhir. S. S.; Weiss, S. Science 2005, 307, 538-544.
2. Gao, X. H.; Yang, L. L.; Petras, J. A.; Marshal, F. F.; Simons, J. W.; Nie, S. M. Curr. Opin. Biotechnol. 2005, 16, 63-72.
3. Akerman, M. E.; Chan, W. C. W.; Laakkonen, P.; Bhatia, S. N.; Ruoslahti, E. P. Proc. Natl Acad. Sci. U.S.A. 2002, 99, 12617-12621.
4. Wu, X. Y.; Liu, H. J.; Liu, J. Q.; Haley, K. N.; Treadway, J. A.; Larson, J. P.; Ge, N. F.; Peale, F.; Bruchez, M. P. Nat. Biotechnol. 2003, 27, 41-46.
5. Kim, S.; Lim, Y. T.; Soltesz, E. G.; De Grand, A. M.; Lee, J.; Nakayama, A.; Parker, J. A.; Mihaljevic, T.; Laurence, R. G.; Dor, D. M.; Cohn, L. H.; Bawendi, M. G.; Frangioni, J. V. Nat. Biotechnol 2004, 22, 93-97.
6. Su, X. L.; Li, Y. B. Anal. Chem. 2004, 76, 4806-4810.
7. Tran, P. T.; Goldman, E. R.; Anderson, G. P.; Mauro, J. M.; Mattoussi, H. Phys. Status Solidi B 2002, 229, 427-432.
8. Kim, J. H.; Morikis, D.; Ozkan, M. Sens. Actuators, B 2004, 102, 315-319.
9. Dubertret, B.; Calame, M.; Libchaber, A. J. Nat. Biotechnol. 2001, 19, 365-370.
10. Yun, C. S.; Javier, A.; Jennings, T.; Fisher, M.; Hira, S.; Peterson, S.; Hopkins, B.; Reich, N. O.; Strouse, G. F. J. Am. Chem. Soc. 2005, 127, 3115-3119.
11. Jennings, T.; Singh, M. P.; Strouse, G. F. J. Am. Chem. Soc. 2006, 128, 5462-5467.
12. Dulkeith, E.; Morteani, A. C.; Niedereichholz, T.; Klar, T. A.; Feldmann, J.; Levi, S. A.; van Veggel, F. C. J. M.; Reinhoudt, D. N.; Moller, M.; Gittins, D. I. Phys. Rev. Lett. 2002, 89, 203002-1.
13. Alivisatos, A. P.; Waldeck. D. H.; Harris, C. B. J. Chem. Phys. 1985, 82, 541-547.
14. Gersten, J.; Nitzan, A. J. Chem. Phys. 1981, 75, 1139-1152.
15. Persson, B. N. J.; Lang, N. D. Phys. Rev. B 1982, 26, 5409-5415.
16. Chance, R.; Prock, A.; Silbey, R. Adv. Chem. Phys. 1978, 60, 1-65.
17. Singh, H.; Bagchi, B. Curr. Sci. 2005, 89, 1710-1719.
18. Dulkeith, E.; Ringler, M.; Klar, T. A.; Feldmann, J.; Javier, A. M.; Parak, W. J. Nano Lett. 2005, 5, 585-589.
19. Scott, W. G.; Murray, J. B.; Arnold, J. R. P.; Stoddard, B. L.; Klug, A. Science 1996, 274, 2065-2069.
20. Bassi, G. S.; Møllegaard, N. E.; Murchie, A. I. H.; Lilley, D. M. J. Biochem. 1999, 38, 3345-3354.
21. Stage-Zimmermann, T. K.; Uhlenbeck, O. C. RNA 1998, 4, 875-889.
22. Uhlenbeck, O. C. RNA 1995, 1, 4-6.
23. Forster, A. C.; Symons, R. H. Cell 1987, 49, 211-220.
24. Bassi, G. S.; Møllegaard, N. E.; Murchie, A. I. H.; Vonkitzing, E.; Lilley, D. M. J. Nat. Struct. Biol. 1995, 2, 45-55.
25. Scott, W. G.; Finch, J. T.; Grenfell, R.; Fogg, J.; Smith, T.; Gait, M. J.; Klug, A. J. Mol. Biol. 1995, 250, 327-332.
26. Bassi, G. S.; Murchie, A. I. H.; Walter, F.; Clegg, R. M.; Lilley, D. M. J. EMBO J. 1997, 16, 7481-7489.
27. Perkins, T. A.; Wolf, D. E.; Goodchild, J. Biochemistry 1996, 35, 16370-16377.
28. Tuschl, T.; Gohlke, C.; Jovin, T. M.; Westhof, E.; Eckstein, F. Science 1994, 266, 785-789.
29. Penedo, J. C.; Wilson, T. J.; Jayasena, S. D.; Khvorova, A.; Lilley, D. M. J. RNA 2004, 10, 880-888.
30. Menger, M.; Tuschl, T.; Eckstein, F.; Porschke, D. Biochemistry 1996, 35, 14710-14716.
31. Scott, W. G.; Klug, A. Trends Biochem. Sci 1996, 21, 220-224.
32. Sawata, S.; Komiyama, M.; Taira, K. J. Am. Chem. Soc. 1995, 117, 2357-2358.
33. Dahm, S. C.; Derrick, W. B.; Uhlenbeck, O. C. Biochemistry 1993, 32, 13040-13045.
34. Fedor, M. J.; Uhlenbeck, O. C. Biochemistry 1992, 31, 12042-12054.
35. 0 is given in the Supporting Information.
36. Strouse group unpublished results.