π-electrons in a single strand of DNA: A phenomenological approach

International Journal of Modern Physics B

Volumn 18, Issue 13, 2004, Pages 1845-1910

  Iguchi, Kazumoto ^a  

^a NONE   (Japan)

Author keywords

electrons; DNA; Electronic property; H ckel theory

Indexed keywords

ADENINE; BASE; CYTOSINE; GUANINE; NITROGEN DERIVATIVE; NUCLEOTIDE; OXYGEN; PHOSPHATE; PHOSPHORUS; SINGLE STRANDED DNA; SUGAR; THYMINE;

CALCULATION; CHEMICAL BOND; CONDUCTANCE; DNA DETERMINATION; DNA STRUCTURE; ELECTRON; ELECTRON TRANSPORT; ENERGY; HYPOTHESIS; MATHEMATICAL ANALYSIS; MEASUREMENT; NUCLEOTIDE SEQUENCE; PARAMETER; PHENOMENOLOGY; QUANTUM MECHANICS; REVIEW; SEMICONDUCTOR; STRUCTURE ANALYSIS; TECHNIQUE;

EID: 3543101537     PISSN: 02179792     EISSN: None     Source Type: Journal    
DOI: 10.1142/S0217979204025051     Document Type: Review

References (130)

1. B. D. Watson and F. H. C. Crick, Nature 171, 737, 964 (1957).
2. L. Stryer, "Biochemistry", Third Ed., (Freeman and Company, New York, 1988).
3. B. Lewin, GENES V (Oxford, New York, 1994).
4. A. Szent-Györgyi, Nature 148, 157 (1941).
5. D. D. Eley and D. I. Spivey, Trans. Faraday Soc. 58, 411 (1962).
6. R. Pethig, in Dielectric and Electronic Properties of Biological Materials (Wiley and Sons, Chichester, 1979).
7. M. E. Burnel, D. D. Eley and V. Subramanyan, Ann. NY. Acad. Sci. 158, 191 (1969).
8. P.-O. Löwdin, Rev. Mod. Phys. 35, 724 (1963).
9. T. A. Hoffmann and J. Ladik, Cancer Res. 21, 474 (1961); Adv. Chem. Phys. VII, 84 (1964); J. Ladik and T. A. Hoffmann, Biopolymers Symposia No. 1, 117 (1964); J. Ladik and G. Bisco, J. Chem. Phys. 42, 1658 (1965); J. Ladik, Int. J. Quantum Chem. 4, 307 (1971); Int. J. Quantum Chem. 23, 1073 (1983).
10. T. A. Hoffmann and J. Ladik, Cancer Res. 21, 474 (1961); Adv. Chem. Phys. VII, 84 (1964); J. Ladik and T. A. Hoffmann, Biopolymers Symposia No. 1, 117 (1964); J. Ladik and G. Bisco, J. Chem. Phys. 42, 1658 (1965); J. Ladik, Int. J. Quantum Chem. 4, 307 (1971); Int. J. Quantum Chem. 23, 1073 (1983).
11. T. A. Hoffmann and J. Ladik, Cancer Res. 21, 474 (1961); Adv. Chem. Phys. VII, 84 (1964); J. Ladik and T. A. Hoffmann, Biopolymers Symposia No. 1, 117 (1964); J. Ladik and G. Bisco, J. Chem. Phys. 42, 1658 (1965); J. Ladik, Int. J. Quantum Chem. 4, 307 (1971); Int. J. Quantum Chem. 23, 1073 (1983).
12. T. A. Hoffmann and J. Ladik, Cancer Res. 21, 474 (1961); Adv. Chem. Phys. VII, 84 (1964); J. Ladik and T. A. Hoffmann, Biopolymers Symposia No. 1, 117 (1964); J. Ladik and G. Bisco, J. Chem. Phys. 42, 1658 (1965); J. Ladik, Int. J. Quantum Chem. 4, 307 (1971); Int. J. Quantum Chem. 23, 1073 (1983).
13. T. A. Hoffmann and J. Ladik, Cancer Res. 21, 474 (1961); Adv. Chem. Phys. VII, 84 (1964); J. Ladik and T. A. Hoffmann, Biopolymers Symposia No. 1, 117 (1964); J. Ladik and G. Bisco, J. Chem. Phys. 42, 1658 (1965); J. Ladik, Int. J. Quantum Chem. 4, 307 (1971); Int. J. Quantum Chem. 23, 1073 (1983).
14. T. A. Hoffmann and J. Ladik, Cancer Res. 21, 474 (1961); Adv. Chem. Phys. VII, 84 (1964); J. Ladik and T. A. Hoffmann, Biopolymers Symposia No. 1, 117 (1964); J. Ladik and G. Bisco, J. Chem. Phys. 42, 1658 (1965); J. Ladik, Int. J. Quantum Chem. 4, 307 (1971); Int. J. Quantum Chem. 23, 1073 (1983).
15. S. Yomosa, Biopolymers Symposia 1, 1 (1964); J. Phys. Soc. Jpn. 19, 1718 (1964).
16. S. Yomosa, Biopolymers Symposia 1, 1 (1964); J. Phys. Soc. Jpn. 19, 1718 (1964).
17. A. K. Bakhshi, Prog. Biophys. Mol. Biol. 61, 187 (1994). References therein.
18. K. Iguchi, RIKEN Review 6, 49 (1994).
19. K. Iguchi, Int. J. Mod. Phys. B10, 3827 (1996).
20. K. Iguchi, Int. J. Mod. Phys. B11, 2405 (1997).
21. K. Iguchi, J. Phys. Soc. Jpn. 70, 593 (2001).
22. K. Iguchi, Int. J. Mod. Phys. B17, 2565 (2003).
23. M. Hjort and S. Stafström, Phys. Rev. Lett. 87, 228101 (2001).
24. H. Sugiyama and I. Salto, J. Amer. Chem. Soc. 118, 7063 (1996).
25. J. Hunter, P. Carloni and M. Parrinello, J. Amer. Chem. Soc. 118, 8710 (1996).
26. P. Carloni and W. Andreoni, J. Chem. Phys. 100, 17797 (1996).
27. J. P. Lewis, P. Ordejón and O. F. Sankey, Phys. Rev. B55, 6880 (1997).
28. M. Machado, P. Ordejón, E. Artachp, D. Sánchez-Portal and J. M. Soler, Physics/990822.
29. P. Hobza and J. Šponer, Chem. Rev. 99, 3247 (1999).
30. R. Di Felice, A. Calzolari, E. Molinari and A. Garbesi, Phys. Rev. B55, 045104 (2001).
31. N. Kurita and K. Kobayashi, Comp. Chem. 24, 351 (2000).
32. E. B. Staxikov, Phys. Chem. Chem. Phys. 4, 4523 (2002); J. Photochem. Photobiol. C: Photochem. Review 3, 147 (2002).
33. E. B. Staxikov, Phys. Chem. Chem. Phys. 4, 4523 (2002); J. Photochem. Photobiol. C: Photochem. Review 3, 147 (2002).
34. F. Luigi Gervasio, P. Carloni and M. Parrinello, Phys. Rev. Lett. 89, 108102 (2002).
35. W. Saenger, Principles of Nucleic Structure (Springer-Verlag, NY, 1984).
36. P. W. Atkins, Physical Chemistry (Oxford, Cambridge, 1994).
37. A. Szabo and N. S. Ostlund, Modern Quantum Chemistry (Dover, NY, 1989).
38. J. J. Ladik, "Polymers as Solids: A Quantum Mechanical Treatment", Phys. Rep. 313, 171 (1999).
39. E. Hückel, Z. Phys. 76, 628 (1932).
40. H. C. C. A. Coulson and H. C. Longuet-Higgins, ibid. A191, 39 (1947); ibid. A192, 16 (1947); ibid. A193, 447 (1948); ibid. A195, 188 (1948); B. H. Chirgwin and H. C. C. A. Coulson, ibid. A201, 196 (1950).
41. H. C. C. A. Coulson and H. C. Longuet-Higgins, ibid. A191, 39 (1947); ibid. A192, 16 (1947); ibid. A193, 447 (1948); ibid. A195, 188 (1948); B. H. Chirgwin and H. C. C. A. Coulson, ibid. A201, 196 (1950).
42. H. C. C. A. Coulson and H. C. Longuet-Higgins, ibid. A191, 39 (1947); ibid. A192, 16 (1947); ibid. A193, 447 (1948); ibid. A195, 188 (1948); B. H. Chirgwin and H. C. C. A. Coulson, ibid. A201, 196 (1950).
43. H. C. C. A. Coulson and H. C. Longuet-Higgins, ibid. A191, 39 (1947); ibid. A192, 16 (1947); ibid. A193, 447 (1948); ibid. A195, 188 (1948); B. H. Chirgwin and H. C. C. A. Coulson, ibid. A201, 196 (1950).
44. H. C. C. A. Coulson and H. C. Longuet-Higgins, ibid. A191, 39 (1947); ibid. A192, 16 (1947); ibid. A193, 447 (1948); ibid. A195, 188 (1948); B. H. Chirgwin and H. C. C. A. Coulson, ibid. A201, 196 (1950).
45. R. Hoffman, J. Chem. Phys. 39, 1397 (1952).
46. K. Fukui, Chemical Reactions and Electronic Orbitals (Maruzen, Tokyo, 1976), in Japanese.
47. J. K. Burdett, "From Bonds to Bands and Molecules to Solids", Prog. Solid St. Chem. 15, 173 (1984).
48. C. B. Murphy, M. R. Arkin, Y. Jenkins, N. D. Ghatlia, S. H. Bossmann, N. J. Turro and J. K. Burton, Science 262, 1025 (1993).
49. T. B. Meade and B. F. Kayyem, Angew. Chem. Int. Engl. 34, 352 (1995).
50. G. S. M. Tong, I. V. Kurnikov and D. N. Beratan, J. Phys. Chem. B106, 2381 (2002).
51. S. Priyadarshy, S. M. Risser and D. N. Beratan, JBIC 3, 196 (1998).
52. W. B. Davis, S. Hess, I. Naydenova, R. Haselsberger, A. Ogrodnik, M. D. Newton and M. E. Michel-Beyerle, J. Am. Chem. Soc. 124, 2422 (2002).
53. W. B. Davis, S. Hess, I. Naydenova, R. Haselsberger, A. Ogrodnik, B. Giese and M. E. Michel-Beyerle, Angew. Chem. Int. Ed. 3, 3649 (2000).
54. H. W. Fink and C. Schönenberger, Nature 398, 407 (1999).
55. S. O. Kelley and J. K. Barton, Science 283, 375 (1999).
56. F. D. Lewis, X. Liu, J. Liu, S. E. Miller, R. T. Hayes and M. R. Wasielewski, Nature 406, 51 (2000); F. D. Lewis, R. L. Letsinger and M. R. Wasielewski, Acc. Chem. Res. 34, 159 (2001).
57. F. D. Lewis, X. Liu, J. Liu, S. E. Miller, R. T. Hayes and M. R. Wasielewski, Nature 406, 51 (2000); F. D. Lewis, R. L. Letsinger and M. R. Wasielewski, Acc. Chem. Res. 34, 159 (2001).
58. B. Giese, J. Amaudrut, A.-K. Köhler, M. Spormann and S. Wessely, Nature 412, 318 (2001).
59. L. T. Cai, H. Tabata and T. Kawai, Appl. Phys. Lett. 77, 3105 (2000); Nanotechnology 12, 211 (2001).
60. L. T. Cai, H. Tabata and T. Kawai, Appl. Phys. Lett. 77, 3105 (2000); Nanotechnology 12, 211 (2001).
61. D. Porath, A. Bezryadin, S. de Vries and C. Dekker, Nature 403, 635 (2000).
62. C. Dekker and N. A. Ratner, Physics World 14, 29 (2001).
63. P. Tran, B. Alavi and G. Gruner, Phys. Rev. Lett. 85, 1564 (2000).
64. K.-H. Yoo, D. H. Ha, J.-O. Lee, J. W. Park, J. Kim, J. J. Kim, H.-Y. Lee, T. Kawai and H. Y. Choi, Phys. Rev. Lett. 87, 198102 (2001).
65. P. J. de Pablo, F. Moreno-Herrero, J. Colchero, J. Gómez Herrero, P. Herrero, A. M. Baró, P. Ordejón, J. M. Soler and E. Artacho, Phys. Rev. Lett. 85, 4992 (2000).
66. Z. Kutnjak, C. Filipiç, R. Podgornik, L. Nordenskiöld and N. Korolev, Phys. Rev. Lett. 90, 098101 (2003).
67. E. Meggers, M. E. Michel-Beyerle and B. Giese, J. Am. Chem. Soc. 120, 12950 (1998).
68. H. Yamada, to appear, Int. J. Mod. Phys. B (2004).
69. J. M. Warman, M. P. de Haas and A. Rupprecht, Chem. Phys. Lett. 249, 319 (1996).
70. G. Cuniberti, L. Craco, D. Porath and C. Dekker, Phys. Rev. B65, 241314 (2002).
71. E. M. Conwell and S. V. Rakhmanova, Proc. Natl. Acad. Sci. USA 97, 4556 (2000).
72. T. D. Holstein, Annals Phys. 8, 325, 343 (1959); L. A. Turkevich and T. D. Holstein, Phys. Rev. B14, 7474 (1987).
73. T. D. Holstein, Annals Phys. 8, 325, 343 (1959); L. A. Turkevich and T. D. Holstein, Phys. Rev. B14, 7474 (1987).
74. P. T. Henderson, D. Jones, G. Hampikian, Y. Kan and G. B. Schuster, Proc. Natl. Acad. Sci. USA 96, 8353 (1999).
75. G. B. Schuster, Acc. Chem. Res. 33, 253 (2000).
76. S. S. Alexandre, E. Artacho, J. M. Solar and H. Chacham, Phys. Rev. Lett. 91, 108105 (2003).
77. D. Hennig, Eur. Phys. J. B30, 211 (2002).
78. W. Zhang, A. O. Govorov and S. E. Ulloa, Phys. Phys. B66, 060303(R) (2002).
79. F. Palmero, J. F. R. Archilla, D. Hennig and F. R. Romero, New J. Phys. 6, 13 (2004).
80. Z. Hermon, S. Caspi and E. Ben-Jacob, Europhys. Lett. 43, 482 (1998).
81. W. P. Su, J. R. Schrieffer and A. J. Heeger, Phys. Rev. Lett. 42, 1698 (1979); Phys. Rev. B22, 2099 (1980).
82. W. P. Su, J. R. Schrieffer and A. J. Heeger, Phys. Rev. Lett. 42, 1698 (1979); Phys. Rev. B22, 2099 (1980).
83. D. N. Beratan, S. Priyadarsky and S. M. Risser, Chem. Biol. 4, 3 (1997).
84. A. K. Felts, W. T. Pollard and R. A. Friesner, J. Phys. Chem. 99, 2929 (1995).
85. J. Jortner, M. Bixon, T. Langenbacher and M. E. Michel-Beyerle, Proc. Natl. Acad. Sci. USA 95, 12759 (1998).
86. Y. A. Berlin, A. L. Burin and M. A. Ratner, J. Phys. Chem. 104, 443 (2000); Chem. Phys. 275, 61 (2002).
87. Y. A. Berlin, A. L. Burin and M. A. Ratner, J. Phys. Chem. 104, 443 (2000); Chem. Phys. 275, 61 (2002).
88. M. Bixon, B. Giese, S. Wessely, T. Langenbacher, M. E. Michel-Beyerle, and J. Jortner, PNAS 96, 11713 (1999).
89. C. R. Treadway, M. G. Hill and J. K. Barton, Chem. Phys. 281, 409 (2002).
90. B. Giese, Acc. Chem. Res. 33, 631 (2000).
91. M. Bixon and J. Jortner, Chem. Phys. 281, 393 (2002).
92. H.-A. Wagenknecht, Angew. Chem. Int. 42, 2454 (2003).
93. Y. A. Berlin, A. L. Burin and M. A. Ratner., J. Am. Chem. Soc. 123, 260 (2001).
94. Y.-J. Ye, R.-S. Chen, A. Martinez, P. Otto and J. Ladik, Solid State Commun. 112, 139 (1999).
95. R. Bruinsma, G. Grüner, M. R. D'Orsogna and J. Rudnick, Phys. Rev. Lett. 85, 4393 (2000).
96. S. Komineas, G. Kalosakas and A. R. Bishop, Phys. Rev. E65, 061905 (2002).
97. D. N. LeBard, M. Lilichenko, D. V. Matyushov, Y. A. Berlin and M. A. Ratner, J. Phys. Chem. B107 14509 (2003).
98. S. Roche, Phys. Rev. Lett. 91, 108101 (2003).
99. S. Roche, D. Bicout, E. Maciá and E. Kats, Phys. Rev. Lett. 91, 228101 (2003).
100. Ch. Adessi, S. Walch and M. P. Anantram, Phys. Rev. B67, 081405(R) (2003).
101. S. W. Englander, N. R. Kallenbach, A. J. Heeger, J. Krumhansl and S. Litwin, Proc. Natl. Acad. Sci. USA 77, 7222 (1980).
102. S. Yomosa, Phys. Rev. A27, 2120 (1983); ibid. A30, 474 (1984); J. Phys. Soc. Jpn. 64, 1917 (1995).
103. S. Yomosa, Phys. Rev. A27, 2120 (1983); ibid. A30, 474 (1984); J. Phys. Soc. Jpn. 64, 1917 (1995).
104. S. Yomosa, Phys. Rev. A27, 2120 (1983); ibid. A30, 474 (1984); J. Phys. Soc. Jpn. 64, 1917 (1995).
105. M. Peyrard and A. R. Bishop, Phys. Rev. Lett. 62, 2755 (1989).
106. S. Cocco and R. Monasson, Phys. Rev. Lett. 83, 51781 (1999); S. Cocco, R. Monasson and J. F. Marko, Phys. Rev. E65, 041907 (2002).
107. S. Cocco and R. Monasson, Phys. Rev. Lett. 83, 51781 (1999); S. Cocco, R. Monasson and J. F. Marko, Phys. Rev. E65, 041907 (2002).
108. G. Brunaud, F. Castet, A. Fritsch, M. Kreissler and L. Ducasse, J. Phys. Chem. B105, 12665 (2001).
109. C.-M. Chang, A. H. Castro Neto and A. R. Bishop, Phil. Mag. B9, 827 (2001).
110. E. B. Starikov, Phil. Mag. Lett. 83, 699 (2003).
111. K. Fukui, K. Morokuma and C. Nagata, Bull. Chem. Soc. Japan 33, 1214 (1960); K. Fukui, A. Imamura and C. Nagata, ibid. 33, 1450 (1960).
112. K. Fukui, K. Morokuma and C. Nagata, Bull. Chem. Soc. Japan 33, 1214 (1960); K. Fukui, A. Imamura and C. Nagata, ibid. 33, 1450 (1960).
113. D. B. Boyd and W. N. Lipscomb, J. Theor. Biol. 25, 403 (1969).
114. B. Pullman and A. Pullman, Rev. Mod. Phys. 32, 428 (1960).
115. N. W. Ashcroft and N. D. Mermin, Solid State Physics (Harcourt Brace College Publishers, New York, 1976).
116. C. K. Chiang, C. R. Fincher, Jr., Y. W. Park, A. J. Heeger, H. Shirakawa, E. J. Louis, S. C. Gau and A. G. MacDiarmid, Phys. Rev. Lett. 39, 1098 (1977).
117. A. J. Heeger, S. Kivelson, J. R. Schrieffer and W.-P. Su, Rev. Mod. Phys. 60, 781 (1988).
118. R. S. Mulliken, J. Chem. Phys. 23, 1841 (1955).
119. M. Wolfsberg and L. Helmholtz, J. Chem. Phys. 20, 837 (1952).
120. C. Sandorfy, Bull. Soc. Chim. (France) 1949, 615.
121. A. Streiwieser, Jr., Molecular Orbital Theory for Organic Chemists (John Wiley & Sons, Inc., New York, 1961), Chap. 5.
122. R. S. Mulliken, C. A. Rieke, D. Orloff and H. Orloff, J. Chem. Phys. 17, 1248 (1949);
123. C. J. Ballhausen and H. B. Gray, Molecular Orbital Theory (Benjamin, New York, 1964), p. 158.
124. S. Yomosa, "Electronic Structures of Proteins", in Quantum Chemistry II, Lecture Series in Biophysics (Yoshioka Shoten, Kyoto, 1965), in Japanese.
125. C. Nagata, "Electronic Structures of DNA", in Quantum Chemistry II, Lecture Series in Biophysics (Yoshioka Shoten, Kyoto, 1965), in Japanese; Introduction to Quantum Biology (Gakkai Shuppan Center, Tokyo, 1985), in Japanese.
126. C. Nagata, "Electronic Structures of DNA", in Quantum Chemistry II, Lecture Series in Biophysics (Yoshioka Shoten, Kyoto, 1965), in Japanese; Introduction to Quantum Biology (Gakkai Shuppan Center, Tokyo, 1985), in Japanese.
127. H. O. Prichard and H. A. Skinner, Chem. Rev. 55, 745 (1955).
128. A. Vela and J. L. Gázquez, J. Phys. Chem. 92, 5688 (1988).
129. J. Zhao and J. P. Lu, Phys. Lett. A319, 523 (2003).
130. V. I. Arnold, Mathematical Methods of Classical Mechanics, Second Edition (Springer-Verlag, Berlin, 1989), p. 225. See also, the note in Refs. 14 and 15.