Tunneling energy effects on GC oxidation in DNA

Journal of Physical Chemistry B

Volumn 106, Issue 9, 2002, Pages 2381-2392

  Tong, Glenna S M ^a   Kurnikov, Igor V ^a,b   Beratan, David N ^a  

^a DUKE UNIVERSITY SCHOOL OF MEDICINE   (United States)

^b NORTHWESTERN UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ELECTRON TRANSFER (ET);

APPROXIMATION THEORY; COMPUTATIONAL METHODS; ELECTRON TUNNELING; ENERGY GAP; OXIDATION; REDOX REACTIONS;

DNA;

EID: 0037035151     PISSN: 10895647     EISSN: None     Source Type: Journal    
DOI: 10.1021/jp013387g     Document Type: Article

References (128)

1. Murphy, C.J.; Arkin, M.R.; Jenkins, Y.; Ghatlia, N.D.; Bossmann, S.H.; Turro, N.J.; Barton, J.K. Science 1993, 262, 1025-1029.
2. Murphy, C.J.; Arkin, M.R.; Ghatlia, N.D.; Bossmann, S.; Turro, N.J.; Barton, J.K. Proc. Natl. Acad. Sci. U.S.A. 1994, 91, 5315-5319.
3. Arkin, M.R.; Stemp, E.D.A.; Holmlin, R.E.; Barton, J.K.; Hormann, A.; Olson, E.J.C.; Barbara, P.F. Science 1996, 273, 475-480.
4. Hall, D.B.; Holmlin, R.E.; Barton, J.K. Nature 1996, 382, 731-735.
5. Dandliker, P.J.; Holmlin, R.E.; Barton, J.K. Science 1997, 275, 1465-1468.
6. Holmlin, R.E.; Dandliker, P.J.; Barton, J.K. Angew. Chem., Int. Ed. Engl. 1997, 36, 2715-2730.
7. Kelley, S.O.; Holmlin, R.E.; Stemp, E.D.A.; Barton, J.K.J. Am. Chem. Soc. 1997, 119, 9861-9870.
8. Kelley, S.O.; Barton, J.K.; Jackson, N.M.; McPherson, L.D.; Potter, A.B.; Spain, E.M.; Allen, M.J.; Hill, M.G. Langmuir 1998, 14, 6781-6784.
9. Kelley, S.O.; Barton, J.K. Science 1999, 283, 375-381.
10. Nunez, M.E.; Hall, D.B.; Barton, J.K. Chem. Biol. 1999, 6, 85-97.
11. Wan, C.Z.; Fiebig, T.; Kelley, S.O.; Treadway, C.R.; Barton, J.K.; Zewail, A.H. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 6014-6019.
12. Wan, C.Z.; Fiebig, T.; Schiemann, O.; Barton, J.K.; Zewail, A.H. Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 14052-14055.
13. Williams, T.T.; Odom, D.T.; Barton, J.K. J. Am. Chem. Soc. 2000, 122, 9048-9049.
14. (a) Fukui, K.; Tanaka, K. Angew. Chem., Int. Ed. Engl. 1998, 37, 158-161.
15. (b) Hess, S.; Gotz, M.; Davis, W.B.; Michel-Beyerle, M.E. J. Am. Chem. Soc. 2001, 123, 10046-10055.
16. Fukui, K.; Tanaka, K.; Fujitsuka, M.; Watanabe, A.; Ito, O. J. Photochem. Photobiol., B 1999, 50, 18-27.
17. Fukui, K. Electrochem. 2000, 68, 992-995.
18. Meggers, E.; Kusch, D.; Spichty, M.; Wille, U.; Giese, B. Angew. Chem., Int. Ed. Engl. 1998, 37, 460-462.
19. Meggers, E.; Michel-Beyerle, M.E.; Giese, B. J. Am. Chem. Soc. 1998, 120, 12950-12955.
20. Giese, B.; Wessely, S.; Spormann, M.; Lindemann, U.; Meggers, E.; Michel-Beyede, M.E. Angew. Chem., Int. Ed. Engl. 1999, 38, 996-998.
21. Davis, W.B.; Naydenova, I.; Haselsberger, R.; Ogrodnik, A.; Giese, B.; Michel-Beyerle, M.E. Angew. Chem., Int. Ed. Engl. 2000, 39, 3649-3652.
22. Giese, B.; Spichty, M. Chem. Phys. Chem. 2000, 1, 195-198.
23. Giese, B.; Wessely, S. Angew. Chem., Int. Ed. Engl. 2000, 39, 3490.
24. Giese, B. Acc. Chem. Res. 2000, 33, 631-636.
25. Brun, A.M.; Harriman, A. J. Am. Chem. Soc. 1992, 114, 3656-3660.
26. Brun, A.M.; Harriman, A. J. Am. Chem. Soc. 1994, 116, 10383-10393.
27. Harriman, A. Angew. Chem., Int. Ed. Engl. 1999, 38, 945-949.
28. Lewis, F.D.; Wu, T.F.; Zhang, Y.F.; Letsinger, R.L.; Greenfield, S.R.; Wasielewski, M.R. Science 1997, 277, 673-676.
29. Lewis, F.D.; Letsinger, R.L. JBIC 1998, 3, 215-221.
30. Lewis, F.D.; Liu, X.Y.; Miller, S.E.; Wasielewski, M.R. J. Am. Chem. Soc. 1999, 121, 9746-9747.
31. Lewis, F.D.; Liu, X.Y.; Wu, Y.S.; Miller, S.E.; Wasielewski, M.R.; Letsinger, R.L.; Sanishvili, R.; Joachimiak, A.; Tereshko, V.; Egli, M. J. Am. Chem. Soc. 1999, 121, 9905-9906.
32. Lewis, F.D.; Wu, T.F.; Liu, X.Y.; Letsinger, R.L.; Greenfield, S.R.; Miller, S.E.; Wasielewski, M.R. J. Am. Chem. Soc. 2000, 122, 2889-2902.
33. Lewis, F.D.; Liu, X.Y.; Liu, J.Q.; Miller, S.E.; Hayes, R.T.; Wasielewski, M.R. Nature 2000, 406, 51-53.
34. Lewis, F.D.; Liu, X.Y.; Liu, J.Q.; Hayes, R.T.; Wasielewski, M.R. J. Am. Chem. Soc. 2000, 122, 12037-12038.
35. Lewis, F.D.; Kalgutkar, R.S.; Wu, Y.; Liu, X.; Liu, J.; Hayes, R.T.; Miller, S.H.; Wasielewski, M.R. J. Am. Chem. Soc. 2000, 122, 12346-12351.
36. (a) Lewis, F.D.; Letsinger, R.L.; Wasielewski, M.R. Acc. Chem. Res. 2000.
37. (b) Lewis, F.D.; Liu, J.; Weigel, W.; Rettig, W.; Kurnikov, I.V.; Beratan, D.N. 2002, in preparation.
38. Meade, T.J.; Kayyem, J.F. Angew. Chem., Int. Ed. Engl. 1995, 34, 352-354.
39. Breslin, D.T.; Schuster, G.B. J. Am. Chem. Soc. 1996, 118, 2311-2319.
40. Ly, D.; Kan, Y.Z.; Armitage, B.; Schuster, G.B. J. Am. Chem. Soc. 1996, 118, 8747-8748.
41. Gasper, S.M.; Schuster, G.B. J. Am. Chem. Soc. 1997, 119, 12762-12771.
42. Henderson, P.T.; Jones, D.; Hampikian, G.; Kan, Y.Z.; Schuster, G.B. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 8353-8358.
43. Ly, D.; Sanii, L.; Schuster, G.B. J. Am. Chem. Soc. 1999, 121, 9400-9410.
44. Schuster, G.B. Acc. Chem. Res. 2000, 33, 253-260.
45. Sanii, L.; Schuster, G.B. J. Am. Chem. Soc. 2000, 122, 11545-11546.
46. Risser, S.M.; Beratan, D.N.; Meade, T.J. J. Am. Chem. Soc. 1993, 115, 2508-2510.
47. Priyadarshy, S.; Beratan, D.N.; Risser, S.M. Int. J. Quantum Chem. 1996, 60, 65-71.
48. Priyadarshy, S.; Risser, S.M.; Beratan, D.N. J. Phys. Chem. 1996, 100, 17678-17682.
49. Beratan, D.N.; Priyadarshy, S.; Risser, S.M. Chem. Biol. 1997, 4, 3-8.
50. Priyadarshy, S.; Risser, S.M.; Beratan, D.N. JBIC 1998, 3, 196-200.
51. Ratner, M. Nature 1999, 397, 480-481.
52. Grozema, F.C.; Berlin, Y.A.; Siebbeles, L.D.A. Int. J. Quantum Chem. 1999, 75, 1009-1016.
53. Berlin, Y.A.; Burin, A.L.; Ratner, M.A. J. Phys. Chem. A 2000, 104, 443-445.
54. Berlin, Y.A.; Burin, A.L.; Ratner, M.A. Superlat. Microstruct. 2000, 28, 241-252.
55. Grozema, F.C.; Berlin, Y.A.; Siebbeles, L.D.A. J. Am. Chem. Soc. 2000, 122, 10903-10909.
56. Berlin, Y.A.; Burin, A.L.; Ratner, M. J. Am. Chem. Soc. 2001, 123, 260-268.
57. Berlin, Y.A.; Burin, A.L.; Siebbeles, L.D.A.; Ratner, M.A. J. Phys. Chem. A 2001, 105, 5666-5678.
58. Bixon, M.; Jortner, J. J. Phys. Chem. B 2000, 104, 3906-3913.
59. Jortner, J.; Bixon, M.; Langenbacher, T.; Michel-Beyerle, M.E. Proc. Natl. Acad. Sci. U.S.A. 1998, 95, 12759-12765.
60. Jortner, J.; Bixon, M.; Langenbacher, T.; Michel-Beyerle, M.E. Biophys. J. 1999, 76, A263.
61. Bixon, M.; Giese, B.; Wessely, S.; Langenbacher, T.; Michel-Beyerle, M.E.; Jortner, J. Proc. Natl. Acad. Sci. U.S.A. 1999, 96, 11713-11716.
62. Voityuk, A.A.; Jortner, J.; Bixon, M.; Rosch, N. Chem. Phys. Lett. 2000, 324, 430-434.
63. Voityuk, A.A.; Rosch, N.; Bixou, M.; Jortner, J. J. Phys. Chem. B 2000, 104, 9740-9745.
64. Voityuk, A.A.; Jortner, J.; Bixon, M.; Rosch, N. J. Chem. Phys. 2001, 114, 5614-5620.
65. Conwell, E.M.; Rakhmanova, S.V. Proc. Natl. Acad. Sci. U.S.A. 2000, 97, 4556-4560.
66. Rakhmanova, S.V.; Conwell, E.M. J. Phys. Chem. B 2001, 105, 2056-2061.
67. Felts, A.K.; Pollard, W.T.; Friesner, R.A. J. Phys. Chem. 1995, 99, 2929-2940.
68. Okada, A.; Chernyak, V.; Mukamel, S. J. Phys. Chem. A 1998, 102, 1241-1251.
69. Yan, Y.J.; Li, X.Q.; Zhang, H.Y. J. Chem. Phys. 2001, 114, 8248-8250.
70. Burrows, C.J.; Muller, J.G. Chem. Rev. 1998, 98, 1109-1151.
71. Armitage, B. Chem. Rev. 1998, 98, 1171-1200.
72. Heelis, P.F.; Hartman, R.F.; Rose, S.D. Chem. Soc. Rev. 1995, 24, 289-&.
73. Park, H.W.; Kim, S.T.; Sancar, A.; Deisenhofer, J. Science 1995, 268, 1866-1872.
74. Thorp, H.H. Trends Biotechnol. 1998, 16, 117-121.
75. Kelley, S.O.; Jackson, N.M.; Hill, M.G.; Barton, J.K. Angew. Chem., Int. Ed. Engl. 1999, 38, 941-945.
76. Wang, J.; Bollo, S.; Paz, J.L.L.; Sahlin, E.; Mukherjee, B. Anal. Chem. 1999, 71, 1910-1913.
77. Armistead, P.M.; Thorp, H.H. Anal. Chem. 2000, 72, 3764-3770.
78. Alivisatos, A.P.; Johnsson, K.P.; Peng, X.G.; Wilson, T.E.; Loweth, C.J.; Bruchez, M.P.; Schultz, P.G. Nature 1996, 382, 609-611.
79. Ratner, M.A.; Jortner, J. Molecular Electronics; Blackwell Science: Oxford, 1997.
80. Braun, E.; Eichen, Y.; Sivan, U.; Ben Yoseph, G. Nature 1998, 391, 775-778.
81. Okahata, Y.; Kobayashi, T.; Tanaka, K.; Shimomura, M. J. Am. Chem. Soc. 1998, 120, 6165-6166.
82. Okahata, Y.; Niikura, K.; Furusawa, H.; Matsuno, H. Anal. Sci. 2000, 16, 1113-1119.
83. Winfree, E.; Liu, F.R.; Wenzler, L.A.; Seeman, N.C. Nature 1998, 394, 539-544.
84. Fink, H.W.; Schonenberger, C. Nature 1999, 398, 407-410.
85. Storhoff, J.J.; Mirkin, C.A. Chem. Rev. 1999, 99, 1849-1862.
86. Mirkin, C.A.; Taton, T.A. Nature 2000, 405, 626-627.
87. Porath, D.; Bezryadin, A.; De Vries, S.; Dekker, C. Nature 2000, 403, 635-638.
88. Bixon, M.; Jortner, J. Adv. Chem. Phys. 1999, 106, 35-202.
89. Davis, W.B.; Wasielewski, M.R.; Ratner, M.A.; Mujica, V.; Nitzan, A. J. Phys. Chem. A 1997, 101, 6158-6164.
90. Marcus, R.A.; Sutin, N. Biochim. Biophys. Acta 1985, 811, 265-322.
91. Wasielewski, M.R. Chem. Rev. 1992, 92, 435-461.
92. Paulson, B.; Pramod, K.; Eaton, P.; Closs, G.; Miller, J.R. J. Phys. Chem. 1993, 97, 13042-13045.
93. Winkler, J.R.; Gray, H.B. Chem. Rev. 1992, 92, 369-379.
94. Kuznetsov, A.M.; Ulstrup, J. Phys. Stat. Solidi B 1982, 114, 673-683.
95. (a) Hopfield, J.J. Proc. Natl. Acad. Sci. U.S.A. 1974, 71, 3640-3644.
96. (b) J.N. Onuchic, J.N.; Beratan, D.N.; Hopfield, J.J. J. Phys. Chem. 1986, 90, 3707-3721.
97. Newton, M.D. Chem. Rev. 1991, 91, 767-792.
98. Daizadeh, I.; Gehlen, J.N.; Stuchebrukhov, A.A. J. Chem. Phys. 1997, 106, 5658-5666.
99. Katz, D.J.; Stuchebrukhov, A.A. J. Chem. Phys. 1998, 109, 4960-4970.
100. Ivashin, N.; Kallebring, B.; Larsson, S.; Hansson, O. J. Phys. Chem. B 1998, 102, 5017-5022.
101. Priyadarshy, S.; Skourtis, S.S.; Risser, S.M.; Beratan, D.N. J. Chem. Phys. 1996, 104, 9473-9481.
102. Kumikov, I.V.; Zusman, L.D.; Kurnikova, M.G.; Farid, R.S.; Beratan, D.N. J. Am. Chem. Soc. 1997, 119, 5690-5700.
103. Kumar, K.; Kurnikov, I.V.; Beratan, D.N.; Waldeck, D.H.; Zimmt, M.B. J. Phys. Chem. A 1998, 102, 5529-5541.
104. Sharp, K.A. Biophys. J. 1998, 74, 1241-1250.
105. Tavernier, H.L.; Fayer, M.D. J. Phys. Chem. B 2000, 104, 11541-11550.
106. Meggers, E.; Giese, B. Nucleosides Nucleotides 1999, 18, 1317-1318.
107. Kelley, S.O.; Barton, J.K. Chem. Biol. 1998, 5, 413-425.
108. Balabin, I.A.; Onuchic, J.N. J. Phys. Chem. B 1998, 102, 7497-7505.
109. Balabin, I.A.; Onuchic, J.N. Science 2000, 290, 114-117.
110. Marcus, R.A.; Sutin, N. Biochim. Biophys. Acta 1985, 811, 265-322.
111. Beratan, D.N.; Onuchic, J.N.; Winkler, J.R.; Gray, H.B. Science 1992, 258, 1740-1741.
112. Gray, H.B.; Winkler, J.R. Annu. Rev. Biochem. 1996, 65, 537-561.
113. Winkler, J.R.; Gray, H.B. JBIC 1997, 2, 399-404.
114. Winlder, J.R. Curr. Opin. Chem. Biol. 2000, 4, 192-198.
115. Barber, J.; Andersson, B. Nature 1994, 370, 31-34.
116. Sivaraja, M.; Goodin, D.B.; Smith, M.; Hoffman, B.M. Science 1989, 245, 738-740.
117. Houseman, A.L.P.; Doan, P.E.; Goodin, D.B.; Hoffman, B.M. Biochem. 1993, 32, 4430-4443.
118. Huyett, J.E.; Doan, P.E.; Gurbiel, R.; Houseman, A.L.P.; Sivaraja, M.; Goodin, D.B.; Hoffman, B.M. J. Am. Chem. Soc. 1995, 117, 9033-9041.
119. RodriguezMonge, L.; Larsson, S. J. Phys. Chem. 1996, 100, 6298-6303.
120. Jordan, K.D.; Paddonrow, M.N. J. Phys. Chem. 1992, 96, 1188-1196.
121. Liang, C.X.; Newton, M.D. J. Phys. Chem. 1992, 96, 2855-2866.
122. Kurnikov, I.V.; Beratan, D.N. J. Chem. Phys. 1996, 105, 9561-9573.
123. Larsson, S. J. Chem. Soc., Faraday Trans. 2 1983, 79, 1375-1388.
124. Sitkoff, D.; Sharp, K.A.; Honig, B. J. Phys. Chem. 1994, 98, 1978-1988.
125. Liu, Y.P.; Newton, M.D. J. Phys. Chem. 1995, 99, 12382-12386.
126. Wolfgang, J.; Risser, S.M.; Priyadarshy, S.; Beratan, D.N. J. Phys. Chem. B 1997, 101, 2986-2991.
127. Lewis, F.D. Private communications.
128. Dolgounitcheva O.; Zakrzewski V.G.; Ortiz J.V. Int. J. Quantum Chem. 2000, 80, 831-835.