Bifacial peptide nucleic acid as an allosteric switch for aptamer and ribozyme function

Journal of the American Chemical Society

Volumn 136, Issue 20, 2014, Pages 7265-7268

  Xia, Xin ^a   Piao, Xijun ^a   Bong, Dennis ^a  

^a OHIO STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOCHEMISTRY; HYBRID SYSTEMS; PEPTIDES; RNA;

BOND SCISSIONS; CATALYTIC SITES; DUPLEX DNA; PEPTIDE NUCLEIC ACID; RNA SPLICING; SMALL-MOLECULE BINDINGS; STRUCTURE FUNCTIONS; SWITCH-ON;

BIOMOLECULES;

DOUBLE STRANDED DNA; HAMMERHEAD RIBOZYME; PEPTIDE APTAMER; PEPTIDE NUCLEIC ACID; RIBOZYME; APTAMER;

ALLOSTERISM; ARTICLE; CATALYSIS; COMPLEX FORMATION; DNA SEQUENCE; DNA STRUCTURE; ELECTROPHORESIS; GEL MOBILITY SHIFT ASSAY; HYBRID; HYDROGEN BOND; MOLECULAR RECOGNITION; RIBOSWITCH; RNA SPLICING; THERMOSTABILITY; CHEMICAL STRUCTURE; CHEMISTRY; METABOLISM;

ALLOSTERIC REGULATION; APTAMERS, NUCLEOTIDE; MOLECULAR STRUCTURE; PEPTIDE NUCLEIC ACIDS; RNA, CATALYTIC;

EID: 84901044516     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja5032584     Document Type: Article

References (50)

1. Shin, D.; Tor, Y. J. Am. Chem. Soc. 2011, 133, 6926
2. Branda, N.; Kurz, G.; Lehn, J.-M. Chem. Commun. 1996, 1996, 2443
3. Chen, H.; Meena; McLaughlin, L. W. J. Am. Chem. Soc. 2008, 130, 13190
4. Zeng, Y.; Pratumyot, Y.; Piao, X.; Bong, D. J. Am. Chem. Soc. 2012, 134, 832
5. Piao, X.; Xia, X.; Bong, D. Biochemistry 2013, 52, 6313
6. Xia, X.; Piao, X.; Fredrick, K.; Bong, D. ChemBioChem 2013, 15, 31
7. Arambula, J. F.; Ramisetty, S. R.; Baranger, A. M.; Zimmerman, S. C. Proc. Natl. Acad. Sci. U.S.A. 2009, 106, 16068
8. Zhou, Z.; Bong, D. Langmuir 2013, 29, 144
9. Vysabhattar, R.; Ganesh, K. N. Tetrahedron Lett. 2008, 49, 1314
10. Mittapalli, G. K.; Reddy, K. R.; Xiong, H.; Munoz, O.; Han, B.; De Riccardis, F.; Krishnamurthy, R.; Eschenmoser, A. Angew. Chem., Int. Ed. 2007, 46, 2470
11. Hysell, M.; Siegel, J. S.; Tor, Y. Org. Biomol. Chem. 2005, 3, 2946
12. Cafferty, B. J.; Gállego, I.; Chen, M. C.; Farley, K. I.; Eritja, R.; Hud, N. V. J. Am. Chem. Soc. 2013, 135, 2447
13. Whitesides, G. M.; Simanek, E. E.; Mathias, J. P.; Seto, C. T.; Chin, D.; Mammen, M.; Gordon, D. M. Acc. Chem. Res. 1995, 28, 37
14. Ma, M.; Paredes, A.; Bong, D. J. Am. Chem. Soc. 2008, 130, 14456
15. Ma, M.; Gong, Y.; Bong, D. J. Am. Chem. Soc. 2009, 131, 16919
16. Ma, M.; Bong, D. Langmuir 2011, 27, 1480
17. Ma, M.; Bong, D. Langmuir 2011, 27, 8841
18. Ma, M.; Bong, D. Org. Biomol. Chem. 2011, 9, 7296
19. Porcheddu, A.; Giacomelli, G. Curr. Med. Chem. 2005, 12, 2561
20. Nielsen, P. E. Peptide nucleic acids: protocols and applications; Taylor & Francis: Oxford, UK, 2004.
21. Mittapalli, G. K.; Osornio, Y. M.; Guerrero, M. A.; Reddy, K. R.; Krishnamurthy, R.; Eschenmoser, A. Angew. Chem., Int. Ed. 2007, 46, 2478
22. Ura, Y.; Beierle, J. M.; Leman, L. J.; Orgel, L. E.; Ghadiri, M. R. Science 2009, 325, 73
23. Garner, P.; Dey, S.; Huang, Y. J. Am. Chem. Soc. 2000, 122, 2405
24. Huang, Y.; Dey, S.; Zhang, X.; Sönnichsen, F.; Garner, P. J. Am. Chem. Soc. 2004, 126, 4626
25. Ariga, K.; Kunitake, T. Acc. Chem. Res. 1998, 31, 371
26. De Greef, T. F. A.; Smulders, M. M. J.; Wolffs, M.; Schenning, A.; Sijbesma, R. P.; Meijer, E. W. Chem. Rev. 2009, 109, 5687
27. Kool, E. T. Chem. Rev. 1997, 97, 1473
28. Betts, L.; Josey, J. A.; Veal, J. M.; Jordan, S. R. Science 1995, 270, 1838
29. Nielsen, P. E.; Egholm, M.; Berg, R. H.; Buchardt, O. Science 1991, 254, 1497
30. Bentin, T.; Nielsen, P. E. J. Am. Chem. Soc. 2003, 125, 6378
31. Bentin, T.; Larsen, H. J.; Nielsen, P. E. Biochemistry 2003, 42, 13987
32. Kaihatsu, K.; Shah, R. H.; Zhao, X.; Corey, D. R. Biochemistry 2003, 42, 13996
33. Rapireddy, S.; He, G.; Roy, S.; Armitage, B. A.; Ly, D. H. J. Am. Chem. Soc. 2007, 129, 15596
34. Datta, B.; Schmitt, C.; Armitage, B. A. J. Am. Chem. Soc. 2003, 125, 4111
35. Datta, B.; Bier, M. E.; Roy, S.; Armitage, B. A. J. Am. Chem. Soc. 2005, 127, 4199
36. Gupta, A.; Lee, L.-L.; Roy, S.; Tanious, F. A.; Wilson, W. D.; Ly, D. H.; Armitage, B. A. ChemBioChem 2013, 14, 1476
37. Perutz, M. F. Q. Rev. Biophys. 1989, 22, 139
38. Breaker, R. R. Curr. Opin. Biotechnol. 2002, 13, 31
39. Fechter, E. J.; Dervan, P. B. J. Am. Chem. Soc. 2003, 125, 8476
40. Wiegand, T. W.; Williams, P. B.; Dreskin, S. C.; Jouvin, M.-H.; Kinet, J.-P.; Tasset, D. J. Immun. 1996, 157, 221
41. Paige, J. S.; Wu, K. Y.; Jaffrey, S. R. Science 2011, 333, 642
42. Paige, J. S.; Nguyen-Duc, T.; Song, W.; Jaffrey, S. R. Science 2012, 335, 1194
43. Kellenberger, C. A.; Wilson, S. C.; Sales-Lee, J.; Hammond, M. C. J. Am. Chem. Soc. 2013, 135, 4906
44. Suess, B.; Weigand, J. E. RNA Biol. 2008, 5, 24
45. Roth, A.; Breaker, R. R. Annu. Rev. Biochem. 2009, 78, 305
46. Topp, S.; Gallivan, J. P. ACS Chem. Biol. 2010, 5, 139
47. Ogawa, A. RNA 2011, 17, 1
48. Murray, J. B.; Terwey, D. P.; Maloney, L.; Karpeisky, A.; Usman, N.; Beigelman, L.; Scott, W. G. Cell 1998, 92, 665
49. Buskirk, A. R.; Liu, D. R. Chem. Biol. 2005, 12, 151
50. Link, K. H.; Breaker, R. R. Gene Ther. 2009, 16, 1189