π堆积的腺嘌呤-胸腺嘧啶体系激发态电荷转移和无辐射失活的半经典动力学模拟

doi:10.3866/PKU.WHXB201205041

Abstract

Abstract:

A semiclassical electronic radiation ion dynamics (SERID) simulation was used to study the photophysical deactivation of π-stacked adenine and thymine. A laser was only applied to the thymine molecule during the simulations. The results showed that an (A⁺T^-)^* type exciplex was formed between excited thymine and unexcited adenine as a consequence of charge transfer. When the intermolecular distance was less than 0.300 nm, the stacked system was recovered to electronic neutrality by charge recombination because of the orbital delocalization effect. When the torsion angle of the C4'－C5' bond of the adenine molecule reached its maximum, the exciplex decayed to its ground state via an avoided crossing. The deactivation channel of the exciplex was found to be dependent on the intermolecular distance and deformation of the adenine molecule. It was difficult for the adenine molecule to undergo strong twist required for deactivation because of the steric hindrance encountered by the C4' and C5' atoms. Consequently, the lifetime of the A-T exciplex was clearly longer than that of the T-T exciplex.

Key words: DNA base, Stacked effect, Exciplex, Charge transfer, Radiationless deactivation

ZHANG Wen-Ying, MA Jing, YUAN Shuai, SHU Kun-Xian, DOU Yu-Sheng. A Semiclassical Dynamics Simulation on Charge Transfer and Radiationless Deactivation Excited State of π-Stacked Adenine-Thymine System[J]. Acta Phys. -Chim. Sin. 2012, 28(07), 1676-1682. doi: 10.3866/PKU.WHXB201205041

References

(1) Beukers, R.; Eker, A. P. M.; Lohman, P. H. M. DNA Repair2008, 7, 530. doi: 10.1016/j.dnarep.2007.11.010
(2) Cadet, J.; Sage, E.; Douki, T. Mutat. Res. 2005, 571, 3. doi: 10.1016/j.mrfmmm.2004.09.012
(3) Melnikova, V. O.; Ananthaswamy, H. N. Mutat. Res. 2005, 571,91. doi: 10.1016/j.mrfmmm.2004.11.015
(4) Mouret, S.; Baudouin, C.; Charveron, M.; Favier, A.; Cadet, J.;Douki, T. Proc. Natl. Acad. Sci. U. S. A. 2006, 103, 13765. doi: 10.1073/pnas.0604213103
(5) Pecourt, J. M. L.; Peon, J.; Kohler, B. J. Am. Chem. Soc. 2001,123, 10370. doi: 10.1021/ja0161453
(6) Sobolewski, A. L.; Domcke,W.; Hattig, C. Proc. Natl. Acad. Sci. U. S. A. 2005, 102, 17903. doi: 10.1073/pnas.0504087102
(7) Crespo-Hernández, C. E.; Kohler, B. J. Phys. Chem. B 2004,108, 11182. doi: 10.1021/jp0496046
(8) Crespo-Hernández, C. E.; Cohen, B.; Kohler, B. Nature 2005,436, 1141. doi: 10.1038/nature03933
(9) Kwok,W. M.; Ma, C. S.; Phillips, D. L. J. Am. Chem. Soc.2006, 128, 11894. doi: 10.1021/ja0622002
(10) Takaya, T.; Su, C.; de La Harpe, K.; Crespo-Hernández, C. E.;Kohler, B. Proc. Natl. Acad. Sci. U. S. A. 2008, 105, 10285. doi: 10.1073/pnas.0802079105
(11) Ullrich, S.; Schultz, T.; Zgierski, M. Z.; Stolow, A. Phys. Chem. Chem. Phys. 2004, 6, 2796.
(12) Ullrich, S.; Schultz, T.; Zgierski, M. Z.; Stolow, A. J. Am. Chem. Soc. 2004, 126, 2262. doi: 10.1021/ja030532q
(13) Eisinger, J.; Guéron, M.; Schulman, R. G.; Yamane, T. Proc. Natl. Acad. Sci. U. S. A. 1966, 55, 1015. doi: 10.1073/pnas.55.5.1015
(14) Birks, J. B. Nature 1967, 214, 1187. doi: 10.1038/2141187a0
(15) Middleton, C. T.; de La Harpe, K.; Su, C.; Law, Y. K.; Crespo-Hernández, C. E.; Kohler, B. Annu. Rev. Phys. Chem. 2009, 60,217. doi: 10.1146/annurev.physchem.59.032607.093719
(16) Santoro, F.; Barone, V.; Improta, R. J. Am. Chem. Soc. 2009,131, 15232. doi: 10.1021/ja904777h
(17) Markovitsi, D.; Gustavsson, T.; Talbot, F. Photochem. Photobiol. Sci. 2007, 6, 717. doi: 10.1039/b705674e
(18) Conti, I.; Altoe, P.; Stenta, M.; Garavelli, M.; Orlandi, G. Phys. Chem. Chem. Phys. 2010, 12, 5016.
(19) Kohler, B. J. Phys. Chem. Lett. 2010, 1, 2047. doi: 10.1021/jz100491x
(20) Shukla, M. K.; Leszczynski, J. J. Biomol. Struct. Dyn. 2007, 25,93.
(21) Kwok,W. M.; Ma, C.; Phillips, D. L. J. Phys. Chem. B 2009,113, 11527. doi: 10.1021/jp906265c
(22) Onidas, D.; Gustavsson, T.; Lazzarotto, E.; Markovitsi, D. Phys. Chem. Chem. Phys. 2007, 9, 5143.
(23) Schwalb, N. K.; Temps, F. Science 2008, 322, 243. doi: 10.1126/science.1161651
(24) Davies, R. J. H.; Malone, J. F.; Gan, Y.; Cardin, C. J.; Lee, M. P.H.; Neidle, S. Nucleic Acids Res. 2007, 35, 1048. doi: 10.1093/nar/gkl1101
(25) Dou, Y.; Torralva, B. R.; Allen, R. E. Chem. Phys. Lett. 2004,392, 352. doi: 10.1016/j.cplett.2004.05.087
(26) Dou, Y.; Torralva, B. R.; Allen, R. E. J. Mod. Optics. 2003, 50,2615.
(27) Boykin, T. B.; Bowen, R. C.; Klimeck, G. Phys. Rev. B 2001,63, 245314. doi: 10.1103/PhysRevB.63.245314
(28) Haugk, M.; Elsner, J.; Frauenheim, T.; Seifert, G.; Sternberg,M. Phys. Status Solidi B 2000, 217, 473. doi: 10.1002/(SICI)1521-3951(200001)217:1<473::AID-PSSB473>3.0.CO;2-N
(29) Frauenheim, T.; Seifert, G.; Elstner, M.; Niehaus, T. A.; Köhler,C.; Amkreutz, M.; Sternberg, M.; Hajnal, Z.; Carlo, D. A.;Suhai, S. J. Phys: Condens. Matter 2002, 14, 3015. doi: 10.1088/0953-8984/14/11/313
(30) Wanko, M.; Garavelli, M.; Bernardi, F.; Niehaus, T. A.;Frauenheim, T.; Elstner, M. J. Chem. Phys. 2004, 120, 1674.doi: 10.1063/1.1635798
(31) Zheng, G.; Lundberg, M.; Jakowski, J.; Vreven, T.; Frisch, M.J.; Morokuma, K. Int. J. Quantum Chem. 2009, 109, 1841. doi: 10.1002/qua.22002
(32) Yuan, S.; Dou, Y. S.;Wu,W. F.; Hu, Y.; Zhao, J. S. J. Phys. Chem. A 2008, 112, 13326.
(33) Yuan, S.;Wu,W. F.; Dou, Y. S.; Zhao, J. S. Chin. Chem. Lett.2008, 19, 1379. doi: 10.1016/j.cclet.2008.07.007
(34) Dou, Y. S.; Hu, Y.; Yuan, S.;Wu,W. F.; Tang, H. Mol. Phys.2009, 107, 181. doi: 10.1080/00268970902769497
(35) Yuan, S.;Wang, D.; Bai, M. Z.;Wei, Z. L.; Meng, P.; Dou, Y. S.Journal of Chongqing Univerisity and Telecommunications (Natural Science Edition) 2009, 21, 821. [袁帅, 王丹,白明泽, 魏照林, 蒙平, 豆育升. 重庆邮电大学学报(自然科学版), 2009, 21, 821.]
(36) Yuan, S.;Wu,W. F.;Wen, Z. L.; Shu, K. X.; Tang, H.; Dou, Y.S.; Lo, G. Mol. Phys. 2010, 108, 3431. doi: 10.1080/00268976.2010.520755
(37) Lei, Y. B.; Yuan, S.; Dou, Y. S.;Wang, Y. B.;Wen, Z. Y. J. Phys. Chem. A 2008, 112, 8497. doi: 10.1021/jp802483b
(38) Shu, K. X.; Ma, J.; Yuan, S.; Dou, Y. S. Journal of Chongqing Univerisity and Telecommunications (Natural Science Edition)2011, 23, 780. [舒坤贤, 马静, 袁帅, 豆育升. 重庆邮电大学学报(自然科学版), 2011, 23, 780.]
(39) Zhang,W. Y.; Yuan, S.; Li, A. Y.; Dou, Y. S.; Zhao, J. S.; Fang,W. H. J. Phys. Chem. C 2010, 114, 5594. doi: 10.1021/jp907290f
(40) Dou, Y. S.; Xiong, S. S.;Wu,W. F.; Yuan, S.; Tang, H.J. Photochem. Photobiol. B 2010, 101, 31. doi: 10.1016/j.jphotobiol.2010.06.008
(41) Zhang,W. Y.; Yuan, S.;Wang, Z. J.; Qi, Z. M.; Zhao, J. S.; Dou,Y. S.; Lo, G. Chem. Phys. Lett. 2011, 506, 303. doi: 10.1016/j.cplett.2011.03.024
(42) Yuan, S.; Zhang,W. Y.; Li, A. Y.; Zhu, Y. M.; Dou, Y. S. Acta Phys. -Chim. Sin. 2011, 27, 825. [袁帅, 张文英, 李安阳,朱义敏, 豆育升. 物理化学学报, 2011, 27, 825.] doi: 10.3866/pku.WHXB20110337
(43) Dou, Y. S.; Li,W.; Yuan, S.; Zhang,W. Y.; Li, A. Y.; Shu, K. X.;Tang, H. Acta Phys. -Chim. Sin. 2011, 27, 2559. [豆育升,李伟, 袁帅, 张文英, 李安阳, 舒坤贤, 唐红. 物理化学学报, 2011, 27, 2559.] doi: 10.3866/pku.WHXB20111115
(44) Yuan, S.; Zhang,W. Y.; Liu, L. H.; Dou, Y. S.; Fang,W. H.; Lo,G. V. J. Phys. Chem. A 2011, 115, 13291. doi: 10.1021/jp207550a
(45) Rehm, D.;Weller, A. Isr. J. Chem. 1970, 8, 259.
(46) Liu, Q.; Liu, Z. L. Chin. J. Org. Chem. 2009, 29, 380. [刘强,刘中立. 有机化学, 2009, 29, 380.]
(47) Seidel, C. A. M.; Schulz, A.; Sauer, M. H. M. J. Phys. Chem.1996, 100, 5541. doi: 10.1021/jp951507c
(48) Devoe, H.; Tinoco, I. J. Mol. Biol. 1962, 4, 500. doi: 10.1016/S0022-2836(62)80105-3
(49) Zhang, L. B.; Bu, Y. X. J. Phys. Chem. B 2008, 112, 10723. doi: 10.1021/jp802556a
(50) Zhang, L. B.; Li, H. F.; Li, J. L.; Chen, X. H.; Bu, Y. X.J. Comput. Chem. 2009, 31, 825.
(51) Zhang,W. Y. Semiclassical Simulation for Deaactivation ofStacked DNA Bases. Ph.D. Dissertation, Northwest University,Xi'an, 2011. [张文英. DNA堆积碱基激发态失活的半经典动力学模拟[D]. 西安: 西北大学, 2011.]

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A Semiclassical Dynamics Simulation on Charge Transfer and Radiationless Deactivation Excited State of π-Stacked Adenine-Thymine System

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