Dynamical signature of abasic damage in DNA

Journal of the American Chemical Society

Volumn 133, Issue 4, 2011, Pages 720-723

  Furse, Kristina E ^a   Corcelli, Steven A ^a  

^a UNIVERSITY OF NOTRE DAME   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AQUEOUS SOLUTIONS; BASE PAIRS; BIO-MOLECULAR; BIOMOLECULAR DYNAMICS; BIOMOLECULAR SYSTEM; CONFORMATIONAL CHANGE; COUNTERIONS; DNA DAMAGES; HIGHLY-CORRELATED; HYDRATION DYNAMICS; LOCAL PERTURBATION; MOLECULAR DYNAMICS SIMULATIONS; PHYSICAL INTERPRETATION; STOKES SHIFT; TIME-DEPENDENT; TIME-SCALES; ULTRA-FAST;

CONFORMATIONS; DNA; HYDRATION; MOLECULAR DYNAMICS; SUGARS; TIME MEASUREMENT;

NUCLEIC ACIDS;

COUMARIN; COUNTERION; DNA; WATER;

ARTICLE; DNA DAMAGE; HYDRATION; MOLECULAR DYNAMICS; MOTION; TECHNIQUE;

BASE SEQUENCE; COUMARINS; DNA ADDUCTS; DNA DAMAGE; MOLECULAR DYNAMICS SIMULATION; NUCLEIC ACID CONFORMATION; TIME FACTORS;

EID: 79851505102     PISSN: 00027863     EISSN: 15205126     Source Type: Journal    
DOI: 10.1021/ja109714v     Document Type: Article

References (28)

1. Fleming, G. R.; Cho, M. H. Annu. Rev. Phys. Chem. 1996, 47, 109.
2. Stratt, R. M.; Maroncelli, M. J. Phys. Chem. 1996, 100, 12981.
3. Abbyad, P.; Shi, X. H.; Childs, W.; McAnaney, T. B.; Cohen, B. E.; Boxer, S. G. J. Phys. Chem. B 2007, 111, 8269.
4. Andreatta, D.; Lustres, J. L. P.; Kovalenko, S. A.; Ernsting, N. P.; Murphy, C. J.; Coleman, R. S.; Berg, M. A. J. Am. Chem. Soc. 2005, 127, 7270.
5. Pal, N.; Verma, S. D.; Sen, S. J. Am. Chem. Soc. 2010, 132, 9277.
6. Pal, S. K.; Zhao, L.; Xia, T. B.; Zewail, A. H. Proc. Natl. Acad. Sci. U. S. A. 2003, 100, 13746.
7. Pal, S. K.; Zhao, L. A.; Zewail, A. H. Proc. Natl. Acad. Sci. U. S. A. 2003, 100, 8113.
8. Halle, B.; Nilsson, L. J. Phys. Chem. B 2009, 113, 8210.
9. Furse, K. E.; Corcelli, S. A. J. Phys. Chem. Lett. 2010, 1, 1813.
10. Furse, K. E.; Corcelli, S. A. J. Am. Chem. Soc. 2008, 130, 13103.
11. Sen, S.; Andreatta, D.; Ponomarev, S. Y.; Beveridge, D. L.; Berg, M. A. J. Am. Chem. Soc. 2009, 131, 1724.
12. Case, D. A.; et al. AMBER 9; University of California: San Francisco, 2006.
13. Wang, J. M.; Cieplak, P.; Kollman, P. A. J. Comput. Chem. 2000, 21, 1049.
14. Perez, A.; Marchan, I.; Svozil, D.; Sponer, J.; Cheatham, T. E.; Laughton, C. A.; Orozco, M. Biophys. J. 2007, 92, 3817.
15. Berendsen, H. J. C.; Grigera, J. R.; Straatsma, T. P. J. Phys. Chem. 1987, 91, 6269.
16. Vega, M. C.; Saez, I. G.; Aymami, J.; Eritja, R.; Vandermarel, G. A.; Vanboom, J. H.; Rich, A.; Coll, M. Eur. J. Biochem. 1994, 222, 721.
17. Woods, K. K.; Maehigashi, T.; Howerton, S. B.; Sines, C. C.; Tannenbaum, S.; Williams, L. D. J. Am. Chem. Soc. 2004, 126, 15330.
18. Furse, K. E.; Corcelli, S. A. J. Chem. Theory Comput. 2009, 5, 1959.
19. Furse, K. E.; Corcelli, S. A. J. Phys. Chem. B 2010, 114, 9934.
20. Furse, K. E.; Lindquist, B. A.; Corcelli, S. A. J. Phys. Chem. B 2008, 112, 3231.
21. Carter, E. A.; Hynes, J. T. J. Chem. Phys. 1991, 94, 5961.
22. Laird, B. B.; Thompson, W. H. J. Chem. Phys. 2007, 126.
23. Kumar, P. V.; Maroncelli, M. J. Chem. Phys. 1995, 103, 3038.
24. Denisov, V. P.; Carlstrom, G.; Venu, K.; Halle, B. J. Mol. Biol. 1997, 268, 118.
25. Drew, H. R.; Dickerson, R. E. J. Mol. Biol. 1981, 151, 535.
26. Halle, B.; Denisov, V. P. Biopolymers 1998, 48, 210.
27. Jana, B.; Pal, S.; Maiti, P. K.; Lin, S. T.; Hynes, J. T.; Bagchi, B. J. Phys. Chem. B 2006, 110, 19611.
28. Liepinsh, E.; Otting, G.; Wuthrich, K. Nucleic Acids Res. 1992, 20, 6549.