RNA Structural Forms Studied by Vibrational Circular Dichroism: Ab Initio Interpretation of the Spectra

Journal of Physical Chemistry B

Volumn 108, Issue 12, 2004, Pages 3899-3911

  Andrushchenko, Valery ^a   Wieser, Hal ^a   Bouř, Petr ^b  

^a UNIVERSITY OF CALGARY   (Canada)

^b INSTITUTE OF ORGANIC CHEMISTRY AND BIOCHEMISTRY   (Czech Republic)

Author keywords

[No Author keywords available]

Indexed keywords

CHROMOPHORES; CRYSTAL STRUCTURE; INFRARED RADIATION; LIGHT ABSORPTION; OLIGOMERS; POLYPEPTIDES; PROTEINS; SUGARS;

DENSITY FUNCTIONAL THEORY (DFT); VIBRATIONAL CIRCULAR DICHROISM (VCD);

RNA;

EID: 1842687491     PISSN: 15206106     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp037106b     Document Type: Article

References (33)

1. Annamalai, A.; Keiderling, T. A. J. Am. Chem. Soc. 1987, 109, 3125.
2. Keiderling, T. A. In Circular Dichroism and the Conformational Analysis of Biomolecules; Fasman, G. D., Ed.; Plenum Press: New York, 1996; pp 555-597.
3. Gulotta, M.; Goss, D. J.; Diem, M. Biopolymers 1989, 28, 2047.
4. Zhong, W.; Gulotta, M.; Goss, D. J.; Diem, M. Biochemistry 1990, 29, 7485.
5. Keiderling, T. A. In Circular Dichroism: Principles and Applications, 2nd ed.; Berova, N., Nakanishi, K., Woody, R. W., Eds.; John Wiley and Sons: New York, 2000; pp 621-666.
6. Wang, L.; Pančoška, P.; Keiderling, T. A. Biochemistry 1994, 33, 8428.
7. Andrushchenko, V.; van de Sande, J. H.; Wieser, H.; Kornilova, S. V.; Blagoi, Y. P. J. Biomol. Struct. Dyn. 1999, 17, 545.
8. Yang, L.; Keiderling, T. A. Biopolymers 1993, 33, 315.
9. Andrushchenko, V.; Blagoi, Y.; van de Sande, J. H.; Wieser, H. J. Biomol. Struct. Dyn. 2002, 19, 889.
10. Birke, S. S.; Diem, M. Biophys. J. 1995, 68, 1045.
11. Andrushchenko, V.; Wieser, H.; Bouř, P. J. Phys. Chem. B 2002, 106, 12623.
12. Ohms, J.; Ackermann, T. Biochemistry 1990, 29, 5237.
13. Dagneaux, C.; Liquier, J.; Taillandier, E. Biochemistry 1995, 34, 16618.
14. Tsuboi, M.; Kyogoku, Y.; Shimanouchi, T. Biochim. Biophys. Acta 1962, 55, 1.
15. Chandrasekaran, R.; Giacometti, A.; Arnott, S. J. Biomol. Struct. Dyn. 2000, 17, 1023
16. Felsenfeld, G.; Davies, D. R.; Rich, A. J. Am. Chem. Soc. 1957, 79, 2023.
17. Saenger, W. Principles of Nucleic Acid Structure; Springer-Verlag: New York, 1984.
18. Miles, H. T. Proc. Natl. Acad. Sci. U.S.A. 1964, 51, 1104.
19. Stephens, P. J. J. Phys. Chem. 1985, 89, 748.
20. Cheeseman, J. R.; Frisch, M. J.; Devlin, F. J.; Stephens, P. J. Chem. Phys. Lett. 1996, 252, 211.
21. Frisch, M. J.; Trucks, G. W.; Schlegel, H. B.; Scuseria, G. E.; Robb, M. A.; Cheeseman, J. R.; Zakrzewski, V. G.; Montgomery, J. A., Jr.; Stratmann, R. E.; Burant, J. C.; Dapprich, S.; Millam, J. M.; Daniels, A. D.; Kudin, K. N.; Strain, M. C.; Farkas, O.; Tomasi, J.; Barone, V.; Cossi, M.; Cammi, R.; Mennucci, B.; Pomelli, C.; Adamo, C.; Clifford, S.; Ochterski, J.; Petersson, G. A.; Ayala, P. Y.; Cui, Q.; Morokuma, K.; Malick, D. K.; Rabuck, A. D.; Raghavachari, K.; Foresman, J. B.; Cioslowski, J.; Ortiz, J. V.; Stefanov, B. B.; Liu, G.; Liashenko, A.; Piskorz, P.; Komaromi, I.; Gomperts, R.; Martin, R. L.; Fox, D. J.; Keith, T.; Al-Laham, M. A.; Peng, C. Y.; Nanayakkara, A.; Gonzalez, C.; Challacombe, M.; Gill, P. M. W.; Johnson, B. G.; Chen, W.; Wong, M. W.; Andres, J. L.; Head-Gordon, M.; Replogle, E. S.; Pople, J. A. Gaussian 98, revisions A.3 and A.7; Gaussian, Inc.: Pittsburgh, PA, 1998.
22. Bouř, P.; Keiderling, T. A. J. Am. Chem. Soc. 1993, 15, 9602.
23. Silva, R. A. G. D.; Kubelka, J.; Bouř, P.; Decatur, S. M.; Keiderling, T. A. Proc. Natl. Acad. Sci. U.S.A. 2000, 97(15), 8318.
24. Bouř, P.; Kubelka, J.; Keiderling, T. A. Biopolymers 2000, 53, 380.
25. Tsankov, D.; Eggimann, T.; Wieser, H. Appl. Spectrosc. 1995, 49, 132.
26. Bouř, P.; Sopková, J.; Bednárová, L.; Maloň, P.; Keiderling, T. A. J. Comput. Chem. 1997, 18, 646.
27. Insight II.; Accelrys Inc.: San Diego, CA, 1995.
28. Maharaj, V. Ph.D. Thesis, University of Calgary, 1996.
29. Bouř, P.; Keiderling, T. A. J. Chem. Phys. 2002, 117, 4126.
30. Becke, A. D. J. Chem. Phys. 1993, 98, 5648.
31. Perdew, J. P.; Wang, Y. Phys. Rev. B 1992, 45, 13244.
32. Bouř, P.; McCann, J.; Wieser, H. J. Phys. Chem. A, 1998, 102, 102.
33. Bouř, P.; Keiderling, T. A. J. Am. Chem. Soc. 1992, 114, 9100.