The structure and dynamics of DNA in the gas phase

Journal of the American Chemical Society

Volumn 125, Issue 26, 2003, Pages 8007-8014

  Rueda, Manuel ^a   Kalko, Susana G ^a   Luque, F Javier ^b   Orozco, Modesto ^a,b  

^a INSTITUTE FOR RESEARCH IN BIOMEDICINE   (Spain)

^b UNIVERSITY OF BARCELONA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

COMPUTER SIMULATION; MOLECULAR DYNAMICS; SOLUTIONS; VAPORIZATION;

MASS SPECTROSCOPY;

DNA;

PHOSPHATE; WATER;

AQUEOUS SOLUTION; ARTICLE; CONTROLLED STUDY; CRYSTAL STRUCTURE; DNA BINDING; DNA CONFORMATION; DNA HELIX; DNA STRAND; DNA STRUCTURE; ENERGY TRANSFER; GAS; HIGH TEMPERATURE; MASS SPECTROMETRY; MOLECULAR DYNAMICS; PROTEIN PROTEIN INTERACTION; SIMULATION; VAPORIZATION;

COMPUTER SIMULATION; DNA; GASES; MODELS, CHEMICAL; MODELS, MOLECULAR; NUCLEIC ACID CONFORMATION; STRUCTURE-ACTIVITY RELATIONSHIP; THERMODYNAMICS; VACUUM; WATER;

EID: 0037526621     PISSN: 00027863     EISSN: None     Source Type: Journal    
DOI: 10.1021/ja0300564     Document Type: Article

References (30)

1. Watson, J. D.; Crick, F. H. C. 1953 Nature 1953, 171, 1303.
2. Blackburn, G. M.; Gait, M. J. Nucleic Acids in Chemistry and Biology; IRL Press: Oxford, 1990; pp 17-70.
3. Bloomfield, V. A.; Crothers, D. M.; Tinoco, I. Nucleic Acids. Structure, Properties and Function; University Science Books: Sausalito, CA, 2000; pp 165-217.
4. Herkovits, T. T.; Hattington, J. P. Biochemistry 1972, 11, 4800.
5. Levine, L.; Gordon, J. A.; Jencks, W. P. Biochemistry 1963, 2, 168.
6. Turner, D. H. In Nucleic Acids. Structure, Properties and Functions; Bloomfield, V. A., Crothers, D. M., Tinoco, I., Eds.; University Science Books: Sausalito, CA, 2000; pp 308-310.
7. Gale, D. C.; Smith, R. D. J. Am. Soc. Mass. Spectrom. 1995, 6, 1154.
8. Hofstadler, S. A.; Griffey, R. H. Chem. Rev. 2001, 101, 377.
9. Gabelica, V.; De Pauw, E.; Rosu, F. J. Mass. Spectrom. 1999, 34, 1328.
10. Wan, K. X.; Shibue, T.; Gro, M. L. J. Am. Chem. Soc. 2000, 122, 300.
11. Reyzer, M. L.; Brodbelt, J. S.; Kerwin, S. M.; Kuman, D. Nucl. Acid Res. 2001, 29, 103.
12. Schnier, P. D.; Klassen, J. S.; Strittmatter, E. F.; Williams, E. R. J. Am. Chem. Soc. 1998, 120, 9605.
13. Drew, H. R.; et al. Proc. Natl. Acad. Sci. U.S.A. 1981, 78, 2179.
14. Arnott, S.; Bond, P. J.; Selsung, E.; Smith, P. J. C. Nucl. Acid Res. 1976, 3, 2459.
15. Kuszewski, J.; Schwieters, C.; Clore, G. M. J. Am. Chem. Soc. 2001, 123, 9303.
16. Harris, S. A.; Gavathiotis, E.; Searle, M. S.; Orozco, M.; Laughton, C. A. J. Am. Chem. Soc. 2001, 123, 12658.
17. Darden, T. A.; York, D.; Pedersen, L. J. Chem. Phys. 1993, 98, 10089.
18. Ryckaert, J. P.; Ciccotti, G.; Berendsen, H. J. C. J. Comput. Phys. 1977, 23, 327.
19. Cheatham, T. E.; Cieplak, P.; Kollman, P. A. J. Biomol. Struct. Dyn. 1999, 16, 8458.
20. Jorgensen, W. L.; Chandrasekhar, J.; Madura, J. D.; Impey, R. W.; Klein, M. L. J. Chem. Phys. 1983, 79, 926.
21. Case, D. A.; et al. AMBER 5, University of California, San Francisco, 1997.
22. Bayly, C. E.; Cieplak, P.; Cornell, W. D.; Kollman, P. A. J. Phys. Chem. 1993, 97, 10269.
23. Hess, B. Phys. Rev. E. 2000, 62, 8438.
24. Schlitter, J. Chem. Phys. Lett. 1993, 215, 617.
25. Wang, W.; Donini, O.; Reyes, C. M.; Kollman, P. A. Annu. Rev. Biophys. Biomol. Struct. 2001, 30, 211.
26. Cheatham, T. E.; Kollman, P. A. Annu. Rev. Phys. Chem. 2000, 51, 435.
27. Sprous, D.; Young, M. A.; Beveridge, D. L. J. Mol. Biol. 1999, 285, 1623.
28. Saenger, W. Principles of Nucleic Acid Structure; Springer-Verlag. New York, 1984.
29. Kosikov, M. K.; Gorin, A. A.; Zhurkin, V. B.; Olson, W. K. J. Mol. Biol. 1999, 289, 1301.
30. Allemand, J. F.; Bensimon, D.; Lavery, R.; Croquete, V. Proc. Natl. Acad. Sci. U.S.A. 1998, 95, 14152.