Ultrafast photo-initiated molecular quantum dynamics in the DNA dinucleotide d(ApG) revealed by broadband transient absorption spectroscopy

Faraday Discussions

Volumn 163, Issue , 2013, Pages 173-188

  Stuhldreier, Mayra C ^a   Temps, Friedrich ^a  

^a UNIVERSITY OF KIEL   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYADENOSINE PHOSPHATE; DEOXYADENYLYL (3' 5') DEOXYGUANOSINE; DEOXYADENYLYL-(3'-5')-DEOXYGUANOSINE; DEOXYGUANOSINE;

ARTICLE; CHEMISTRY; MOLECULAR DYNAMICS; PHOTOCHEMISTRY; SPECTROFLUOROMETRY;

DEOXYADENINE NUCLEOTIDES; DEOXYGUANOSINE; MOLECULAR DYNAMICS SIMULATION; PHOTOCHEMICAL PROCESSES; SPECTROMETRY, FLUORESCENCE;

EID: 84884694788     PISSN: 13596640     EISSN: 13645498     Source Type: Journal    
DOI: 10.1039/c3fd00003f     Document Type: Article

References (76)

1. J. Eisinger R. G. Shulman Science 1968 161 1311 1319
2. P. R. Callis Annu. Rev. Phys. Chem. 1983 34 329 352
3. C. E. Crespo-Hernández B. Cohen P. M. Hare B. Kohler Chem. Rev. 2004 104 1977 2019
4. C. T. Middleton K. de La Harpe C. Su Y. K. Law C. E. Crespo- Hernández B. Kohler Annu. Rev. Phys. Chem. 2009 60 217 239
5. J.-M. L. Pecourt J. Peon B. Kohler J. Am. Chem. Soc. 2000 122 9348 9349
6. J. Peon A. H. Zewail Chem. Phys. Lett. 2001 348 255 262
7. T. Gustavsson A. Sharonov D. Markovitsi Chem. Phys. Lett. 2002 351 195 200
8. C. E. Crespo-Hernández B. Cohen B. Kohler Nature As is customary in the literature on DNA, the terms 'excimer' and 'exciplex' will be used essentially synonymously in this text to describe the formation of a (comparatively long-lived) bound complex of two nucleobases upon excitation with shared electron density between them regardless of whether the two nucleobases are identical or not. Strictly speaking, the definition of an excimer or exciplex (as 'excited homodimer' or 'excited heterodimer', respectively) describes the formation of a bound dimer in the excited electronic state from two units that are not connected in their ground state, while the nucleobases as the chromophores of interest in a di- or oligonucleotide are linked via the sugar-phosphate backbone. But the important point in the present case is the formation of a bound complex with shared electron density between the two bases on excitation. Accordingly, the two nucleobase chromophores can be regarded as electronically unbound in the ground state, the bound state arises on electronic excitation of a subunit only. An exciplex with two different chromophores usually implies at least some charge transfer (CT) character of the excited state due to the different ionization energies and electron affinities of the subunits, an excimer may be neutral regarding the charges on two identical subunits 2005 436 1141 1144
9. C. E. Crespo-Hernández B. Cohen B. Kohler Nature 2006 441 E8
10. D. Markovitsi F. Talbot T. Gustavsson D. Onidas E. Lazzarotto S. Marguet Nature 2006 441 E7
11. N. K. Schwalb F. Temps Science 2008 322 243 245
12. W.-M. Kwok C. Ma D. L. Phillips J. Phys. Chem. B 2009 113 11527 11534
13. S. O. Konorov H. G. Schulze C. J. Addison C. A. Haynes M. W. Blades R. F. B. Turner Open Spectrosc. J. 2009 3 9 20
14. B. Kohler J. Phys. Chem. Lett. 2010 1 2047 2053
15. I. Vayá T. Gustavsson F.-A. Miannay T. Douki D. Markovitsi J. Am. Chem. Soc. 2010 132 11834 11835
16. I. Vayá J. Brazard T. Gustavsson D. Markovitsi Photochem. Photobiol. Sci. 2012 11 1767 1773
17. D. Markovitsi T. Gustavsson I. Vayá J. Phys. Chem. Lett. 2010 1 3271 3276
18. F. Santoro V. V. Barone R. Improta Proc. Natl. Acad. Sci. U. S. A. 2007 104 9931 9936
19. D. Nachtigallovà P. Hobza H.-H. Ritze Phys. Chem. Chem. Phys. 2008 10 5689 5697
20. E. B. Starikov G. Cuniberti S. Tanaka J. Phys. Chem. B 2009 113 10428 10435
21. A. W. Lange M. A. Rohrdanz J. M. Herbert J. Phys. Chem. B 2008 112 6304 6306
22. A. W. Lange J. M. Herbert J. Am. Chem. Soc. 2009 131 3913 3922
23. G. Olaso-González M. Merchán L. Serrano-Andrés J. Am. Chem. Soc. 2009 131 4368 4377
24. I. Conti P. Altoè M. Stenta M. Garavelli G. Orlandi Phys. Chem. Chem. Phys. 2010 12 5016 5023
25. Y. Lu Z. Lan W. Thiel Angew. Chem., Int. Ed. 2011 50 6864 6867
26. R. Improta V. Barone Angew. Chem., Int. Ed. 2011 50 12016 12019
27. F. Plasser A. J. A. Aquino W. L. Hase H. Lischka J. Phys. Chem. A 2012 116 11151 11160
28. M. C. Stuhldreier, M. Malicki, K. Röttger, C. Schüler, J. Kleber, T. Muskat and F. Temps, to be submitted, 2013
29. M. Y. Warshaw I. Tinoco J. Mol. Biol. 1966 20 29 38
30. C. R. Cantor M. M. Warshaw H. Shapiro Biopolymers 1970 9 1059 1077
31. J. L. Sussman I. Barzilav M. Keren-Zur Y. Lapidot Biochim. Biophys. Acta, Nucleic Acids Protein Synth. 1973 308 189 197
32. N. P. Johnson T. Schleich Biochemistry 1974 13 981 987
33. C.-H. Lee F. S. Ezra N. S. Kondo R. H. Sarma S. S. Danyluk Biochemistry 1976 15 3627 3639
34. C. S. M. Olsthoorn C. A. G. Haasnoot C. Altona Eur. J. Biochem. 2005 106 85 95
35. C. S. M. Olsthoorn L. J. Bostelaar J. J. van Boom C. Altona Eur. J. Biochem. 1980 112 95 110
36. C. S. M. Olsthoorn L. J. Bostelaar J. F. M. De Rooij J. H. van Boom C. Altona Eur. J. Biochem. 1981 115 309 321
37. C. S. M. Olsthoorn J. Doornbos H. P. M. de Leeuw C. Altona Eur. J. Biochem. 1982 125 367 382
38. Z. Vokčov M. BudǎŠnsk I. Rosenberg B. Schneider J. Šponer V. Sychrovsk J. Phys. Chem. B 2009 113 1182 1191
39. J. Eisinger M. Gueron R. G. Shulman T. Yamane Proc. Natl. Acad. Sci. U. S. A. 1966 55 1015 1020
40. M. Daniels J. P. Morgan Chem. Phys. Lett. 1978 58 283 286
41. J. P. Morgan P. R. Callis Photochem. Photobiol. 1979 29 1107 1113
42. J. P. Morgan M. Daniels Photochem. Photobiol. 1980 31 101 113
43. J. P. Morgan M. Daniels Photochem. Photobiol. 1980 31 207 213
44. C. S. Shaar J. P. Morgan M. Daniels Photochem. Photobiol. 1984 39 747 753
45. M. Daniels C. S. Shaar J. P. Morgan Biophys. Chem. 1988 32 229 237
46. I. Buchvarov Q. Wang M. Raytchev A. Trifonov T. Fiebig Proc. Natl. Acad. Sci. U. S. A. 2007 104 4794 4797
47. T. Takaya C. Su K. de La Harpe C. E. Crespo-Hernández B. Kohler Proc. Natl. Acad. Sci. U. S. A. 2008 105 10285 10290
48. C. Su C. T. Middleton B. Kohler J. Phys. Chem. B 2012 116 10266 10274
49. M. C. Stuhldreier, C. Schüler, J. Kleber and F. Temps, Ultrafast Phenomena XVII, Oxford, 2011, pp. 553-555
50. N. K. Schwalb F. Temps J. Phys. Chem. A 2009 113 13113 13123
51. K. Röttger R. Siewertsen F. Temps Chem. Phys. Lett. 2012 536 140 146
52. J. Kleber, Diploma Thesis, Kiel, 2009
53. D. Onidas D. Markovitsi S. Marguet T. Gustavsson J. Phys. Chem. B 2002 106 11367 11374
54. T. Pancur N. K. Schwalb F. Renth F. Temps Chem. Phys. 2005 313 199 212
55. J.-M. L. Pecourt J. Peon B. Kohler J. Am. Chem. Soc. 2001 123 10370 10378
56. V. Karunakaran K. Kleinermanns R. Improta S. A. Kovalenko J. Am. Chem. Soc. 2009 131 5839 5850
57. L. Serrano-Andrés M. Merchán J. Photochem. Photobiol., C 2009 10 21 32
58. T. Gustavsson R. Improta D. Markovitsi J. Phys. Chem. Lett. 2010 1 2025 2030
59. M. Barbatti A. J. A. Aquino J. J. Szymczak D. Nachtigallovà P. Hobza H. Lischka Proc. Natl. Acad. Sci. U. S. A. 2010 107 21453 21458
60. C. M. Marian J. Chem. Phys. 2005 122 104314
61. S. Perun A. L. Sobolewski W. Domcke J. Am. Chem. Soc. 2005 127 6257 6265
62. L. Blancafort J. Am. Chem. Soc. 2006 128 210 219
63. L. Serrano-Andrés M. Merchán A. C. Borin Chem.-Eur. J. 2006 12 6559
64. M. Barbatti H. Lischka J. Am. Chem. Soc. 2008 130 6831 6839
65. I. Conti M. Garavelli G. Orlandi J. Am. Chem. Soc. 2009 131 16108 16118
66. M. Barbatti Z. Lan R. Crespo-Otero J. J. Szymczak H. Lischka W. Thiel J. Chem. Phys. 2012 137 22A503
67. H. Chen S. Li J. Chem. Phys. 2006 124 154315
68. C. M. Marian J. Phys. Chem. A 2007 111 1545 1553
69. S. Yamazaki W. Domcke J. Phys. Chem. A 2008 112 7090 7097
70. S. Yamazaki W. Domcke A. L. Sobolewski J. Phys. Chem. A 2008 112 11965 11968
71. L. Serrano-Andrés M. Merchán A. C. Borin J. Am. Chem. Soc. 2008 130 2473 2484
72. M. Barbatti J. J. Szymczak A. J. A. Aquino D. Nachtigallovà H. Lischka J. Chem. Phys. 2011 134 014304
73. B. Heggen Z. Lan W. Thiel Phys. Chem. Chem. Phys. 2012 14 8137 8146
74. F. Santoro V. Barone A. Lami R. Improta Phys. Chem. Chem. Phys. 2010 12 4934 4948
75. N. Öksüz and F. Temps, unpublished results
76. T. Pancur F. Renth F. Temps B. Harbaum A. Krüger R. Herges C. Näther Phys. Chem. Chem. Phys. 2005 7 1985 1989