Base sequence effects on transport in DNA

Journal of Physical Chemistry B

Volumn 110, Issue 11, 2006, Pages 5801-5806

  Conwell, Esther M ^a   Bloch, Steven M ^a  

^a UNIVERSITY OF ROCHESTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

FREE ENERGY; INTEGRAL EQUATIONS; OXIDATION; POLARONS; POSITIVE IONS;

BASE SEQUENCE EFFECTS; CYTOSINE; POLARON HOPPING; THYMINES;

DNA;

EID: 33645655496     PISSN: 15206106     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp0553986     Document Type: Article

References (42)

1. Emin, D.; Holstein, T. Phys. Rev. Lett. 1976, 36, 323-326.
2. Shao, F.; O'Neill, M. A.; Barton, J. K. Proc. Natl. Acad. Sci. U.S.A. 2004, 101, 17914-17919.
3. Henderson, P. T.; Jones, D.; Hampikian, G.; Kan, Y.; Schuster, G. B. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 8353-8358.
4. Conwell, E. M.; Rakhmanova, S. V. Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 4556-4560.
5. Kurnikov, I. V.; Tong, G. S. M.; Madrid, M.; Beratan, D. N. J. Phys. Chem. B 2002, 106, 7-10.
6. Basko, D. M.; Conwell, E. M. Phys. Rev. Lett. 2002, 88, 098102.
7. O'Neill, M. A.; Barton, J. K. J. Am. Chem. Soc. 2004, 126, 11471-11483.
8. Conwell, E. M. Proc. Natl. Acad. Sci. U.S.A. 2005, 102, 8795-8799.
9. Basko, D. M.; Conwell, E. M. Phys. Rev. B 2002, 66, 094304.
10. It should be noted that the strong similarity of the polaron wave function due to distortion and that due to the water and ions that is seen in Figure 1 of ref 6 is an accident of the choice of the parameters for the distortion case. If the transfer integral had been chosen smaller, such as the values found in more recent calculations, then the wave function of the distortion polaron would have been much more extended.
11. 12 Experiments of O'Neill and Barton, discussed at length in ref 7, establish that they did not see such effects due to the ions, which suggests they are not usual.
12. Barnett, R. N.; Cleveland, C. L.; Joy, A.; Landman, U.; Schuster, G. B. Science 2001, 294, 567-571.
13. Voityuk, A. A.; Rösch, N.; Bixon, M.; Jortner, J. J. Phys. Chem. B 2000, 104, 9740-9745.
14. Troisi, A.; Orlandi, G. Chem. Phys. Lett. 2001, 344, 509-518.
15. Zhang, M.-L.; Miao, M. S.; Van Doren, V. E.; Ladik, J. J.; Mintmire, J. W. J. Chem. Phys. 1999, 111, 8696-8700.
16. Voityuk, A. A.; Jortner, J.; Bixon, M.; Rösch, N. Chem. Phys. Lett. 2000, 324, 430-434.
17. Senthilkumar, K.; Grozema, F. C.; Fonseca Guerra, C.; Bickelhaupt, F. M.; Siebbeles, L. D. A. J. Am. Chem. Soc. 2003, 125, 13658-13659.
18. Saito, I.; Nakamura, T.; Nakatani, K. J. Am. Chem. Soc. 2000, 122, 3001-3006.
19. Steenken, S.; Jovanovic, S. C. J. Am. Chem. Soc. 1997, 119, 617-618.
20. Orlov, V. M.; Smirnov, A. N.; Varshavsky, Y. M. Tetrahedron Lett. 1976, 48, 4377-4378.
21. Grozema, F. C.; Siebbeles, L. D. A.; Berlin, Y. A.; Ratner, M. A. ChemPhysChem 2002, 3, 536-539.
22. Conwell, E. M.; Basko, D. M. J. Am. Chem. Soc. 2001, 123, 11441-11445.
23. Park, J.-H.; Choi, H.-Y.; Conwell, E. M. J. Phys. Chem. B 2004, 108, 19483-19486.
24. Lewis, F. D.; Liu, X.; Hayes, R. T.; Wasielewski, M. R. J. Am. Chem. Soc. 2000, 122, 12037-12038.
25. Giese, B.; Amaudrut, J.; Köhler, A.-K.; Spormann, M.; Wessely, S. Nature 2001, 412, 318-320.
26. Bixon, M.; Jortner, J. Chem. Phys. 2002, 281, 393-408.
27. Conwell, E. M.; Park, J.-H.; Choi, H.-Y. J. Phys. Chem. B 2005, 109, 9760-9763,
28. Spassky, A.; Angelov, D. Biochemistry 1997, 36, 6571-6576.
29. Saito, I.; Nakamura, T.; Nakatani, K. J. Am. Chem. Soc. 2000, 122, 3001-3006.
30. Melvin, T.; Plumb, M. A.; Botchway, S. W.; O'Neill, P.; Parker, A. W. Photochem. Photobiol. 1995, 61, 584-591.
31. Sugiyama, H.; Saito, I. J. Am. Chem. Soc. 1996, 118, 7063-7068.
32. Seidel, C. A. M.; Schulz, A.; Sauer, H. M. J. Phys. Chem. 1996, 100, 5541-5553.
33. Liu, C.-S.; Hernandez, R.; Schuster, G. B. J. Am. Chem. Soc. 2004, 126, 2877-2884.
34. Williams, T. T.; Odom, D. T.; Barton, J. K. J. Am. Chem. Soc. 2000, 122, 9048-9049.
35. Williams, T. T.; Dohno, C.; Stemp, E. D. A.; Barton, J. K. J. Am. Chem. Soc. 2004, 126, 8148-8158.
36. Steenken, S. Free Radical Res. Commun. 1992, 16, 349-379.
37. Giese, B.; Wessely, S. Chem. Commun. 2001, 2108-2109.
38. Kawai, K.; Takada, T.; Tojo, S.; Majima, T. J. Am. Chem. Soc. 2003, 125, 6842-6843.
39. Takada, T. D.; Kawai, K.; Cai, X.; Sugimoto, A.; Fujitsuka, M.; Majima, T. J. Am. Chem. Soc. 2004, 126, 1125-1129.
40. Giese, B. Acc. Chem. Res. 2000, 33, 631-636.
41. Voityuk, A. A.; Siriwong, K.; Rösch, N. Angew. Chem., Int. Ed. 2004, 43, 624-627.
42. Voityuk, A. A.; Siriwong, K.; Rösch, N. Phys. Chem. Chem. Phys. 2001, 3, 5421-5425.