Vibrational analysis of nucleic acids. IV. Normal modes of the DNA phosphodiester structure modeled by diethyl phosphate

Biopolymers

Volumn 39, Issue 6, 1996, Pages 813-835

  Guan, Yifu ^a   Thomas Jr , George J ^a  

^a UNIVERSITY OF MISSOURI KANSAS CITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONFORMATIONS; ESTERS; INFRARED SPECTROSCOPY; MATHEMATICAL MODELS; MOLECULAR STRUCTURE; MOLECULAR VIBRATIONS; RAMAN SPECTROSCOPY;

DIETHYL PHOSPHATE; HARTREE FOCK LEVEL; PHOSPHODIESTER STRUCTURES;

NUCLEIC ACIDS;

DNA; NUCLEIC ACID; ORGANOPHOSPHATE; PHOSPHORUS DERIVATIVE; RNA;

ARTICLE; DNA STRUCTURE; NUCLEIC ACID ANALYSIS; SPECTROSCOPY; VIBRATION;

EID: 0030561342     PISSN: 00063525     EISSN: None     Source Type: Journal    
DOI: 10.1002/(sici)1097-0282(199612)39:6<813::aid-bip7>3.0.co;2-y     Document Type: Article

References (48)

1. Williamson, J. R. (1994) Ann. Rev. Biophys. Biomol. Struct. 23, 703-730.
2. Leroy, J.-L. & Gueron, M. (1995) Structure 3, 101-120.
3. Rippe, K. & Jovin, T. M. (1992) Methods Enzymol. 221, 199-220.
4. Frank-Kamenetskii, M. D. (1992) Methods Enzymol. 221, 180-191.
5. Saenger, W. (1985) Principles of Nucleic Acid Structure, Springer-Verlag, New York.
6. Thomas, G. J., Jr. & Tsuboi, M. (1993) Adv. Biophys. Chem. 3, 1-69.
7. Benevides, J. M., Wang, A. H.-J., van der Marel, G. A., van Boom, J. H., Rich, A. & Thomas, G. J., Jr. (1984) Nucleic Acids Res. 12, 5912-5925.
8. Benevides, J. M., Wang, A. H.-J., Rich, A., Kyogoku, Y., van der Marel, G. A., van Boom, J. H. & Thomas, G. J., Jr. (1986) Biochemistry 25, 41-50.
9. Benevides, J. M., Wang, A. H.-J., van der Marel, G. A., van Boom, J. H. & Thomas, G. J., Jr. (1988) Biochemistry 27, 931-938.
10. Benevides, J. M., Tsuboi, M., Wang, A. H.-J. & Thomas, G. J., Jr. (1993) J. Am. Chem. Soc. 115, 5351-5359.
11. Thomas, G. J., Jr. & Wang, A. H.-J. (1988) Nucleic Acids Mol. Biol. 2, 1-30.
12. Peticolas, W. L. & Evertsz, E. (1992) Methods Enzymol. 221, 335-352.
13. Guan, Y., Wurrey, C. J. & Thomas, G. J., Jr. (1994) Biophys. J. 66, 225-235.
14. Guan, Y., Choy, G. S.-C., Glaser, R. & Thomas, G. J., Jr. (1995) J. Phys. Chem. 99, 12054-12062.
15. Guan, Y. & Thomas, G. J., Jr. (1996) J. Mol. Struct. 379, 31-41.
16. Shimanouchi, T., Tsuboi, M. & Kyogoku, Y. (1964) Adv. Chem. Phys. 7, 435-498.
17. Garrigou-Lagrange, C., Bouloussa, O. & Clement, C. (1976) Can. J. Spectrosc. 21, 75-82.
18. Taga, K., Miyagai, K., Hirabayashi, N., Yoshida, T. & Okabayashi, H. (1991) J. Mol. Struct. 245, 1-11.
19. Bicknell-Brown, E., Brown, K. G. & Person, W. B. (1982) J. Raman Spectrosc. 12, 180-189.
20. Kyogoku, Y. & Iitaka, Y. (1966) Acta Cryst. 21, 49-57.
21. Mortimer, F. S. (1957) Spectrochim. Acta 9, 270-281.
22. Nyquist, R. A. & Potts, W. J., Jr. (1972) in Analytical Chemistry of Phosphorus Compounds, Halmann, M., Ed., John Wiley & Sons, New York, pp. 189-293.
23. Mavel, G. (1973) in Annual Reports on NMR Spectroscopy, 5B, Mooney, E. F., Ed., Academic Press, London, pp. 1-435.
24. Thomas, G. J., Jr. & Barylski, J. (1970) Appl. Spectrosc. 24, 463-464.
25. Li, Y., Thomas, G. J., Jr., Fuller, M. & King, J. (1981) Prog. Clin. Biol. Res. 64, 271-283.
26. Prescott, B., Steinmetz, W. & Thomas, G. J., Jr. (1984) Biopolymers 23, 235-256.
27. Frisch, M. J., Head-Gordon, M., Trucks, G. W., Foresman, J. B., Schlegel, H. B., Raghavachari, K., Robb, M., Binkley, J. S., Gonzalez, C., Defrees, D. J., Fox, D. J., Whiteside, R. A., Seeger, R., Melius, C. F., Baker, J., Martin, R. L., Kahn, L. R., Stewart, J. J. P., Topiol, S. & Pople, J. A. (1990) Gaussian 90, Gaussian Inc., Pittsburgh, PA.
28. Fogarasi, G. & Pulay, P. (1985) in Vibrational Spectra and Structure, Vol. 14, Durig, J. R., Ed., Elsevier, Amsterdam, The Netherlands, pp. 125-219.
29. Roeges, N. P. G. (1994) A Guide to the Complete Interpretation of Infrared Spectra of Organic Structures, John Wiley & Sons, New York.
30. Wurrey, C. J., Bucy, W. E. & Durig, J. R. (1976) J. Phys. Chem. 80, 1129-1136.
31. Perchard, J. P. & Josien, M. L. (1968) J. Chim. Phys. Phys.-Chim. Biol. 64, 1856-1875.
32. McKean, D. C., McQuillan, G. P., Robertson, A. H. J., Murphy, W. F., Mastryukov, V. S. & Boggs, J. E. (1995) J. Phys. Chem. 99, 8994-9002.
33. Nyquist, R. A. (1969) Spectrochim. Acta 25A, 47-66.
34. Miller, F. A. & Kiviat, F. E. (1969) Spectrochim. Acta 25A, 1363-1374.
35. Mikawa, Y., Brasch, J. W. & Jakobsen, R. J. (1971) Spectrochim. Acta 27A, 529-539.
36. Dempster, A. B. & Zerbi, G. (1971) J. Mol. Spectrosc. 39, 1-7.
37. Mantsch, H. H., Cameron, D. G., Tremblay, P. A. & Kates, M. (1982) Biochim. Biophys. Acta 689, 63-72.
38. Sutherland, G. B. B. M. & Tsuboi, M. (1957) Proc. Roy. Soc. Lond. 239, 446-463.
39. Falk, M., Hartman, K. A., Jr. & Lord, R. C. (1963) J. Am. Chem. Soc. 85, 387-391.
40. Pohle, W., Bohl, M. & Bohlig, H. (1990) J. Mol. Struct. 242, 333-342.
41. Thomas, G. J., Jr. (1970) Biochim. Biophys. Acta 213, 417-423.
42. Hartman, K. A., Lord, R. C. & Thomas, G. J., Jr. (1973) in Physico-Chemical Properties of Nucleic Acids, Vol. 2, Duchesne, J., Ed., Academic Press, New York, pp. 1-89.
43. Hadzi, D., Hodoscek, M., Grdadolnik, J. & Avbelj, F. (1992) J. Mol. Struct. 266, 9-19.
44. Liang, C., Ewig, C. S., Stouch, T. R. & Hagler, A. T. (1993) J. Am. Chem. Soc. 115, 1537-1545.
45. Fogarasi, G. & Pulay, P. (1984) Ann. Rev. Phys. Chem. 35, 191-213.
46. Wilson, E. B., Jr., Decius, J. C. & Cross, P. C. (1955) Molecular Vibrations, McGraw-Hill, New York.
47. Shaw, R. A., Wieser, H., Dutler, R. & Rauk, A. (1990) J. Am. Chem. Soc. 112, 5401-5410.
48. Durig, J. R., Nanaie, H. & Guirgis, G. A. (1991) J. Raman Spectrosc. 22, 155-168.