Citation: Wang Yinghui, Jie Jialong, Zhao Hongmei, Bai Yu, Qin Peixuan, Song Di. Deprotonation of Guanine Radical Cation in G-Quadruplex: A Combined Experimental and Theoretical Study[J]. Acta Chimica Sinica, ;2018, 76(6): 475-482. doi: 10.6023/A17120557 shu

Deprotonation of Guanine Radical Cation in G-Quadruplex: A Combined Experimental and Theoretical Study

  • Corresponding author: Song Di, songdi@iccas.ac.cn
  • Received Date: 27 December 2017
    Available Online: 20 June 2018

    Fund Project: the National Natural Science Foundation of China 91441108the National Natural Science Foundation of China 21773257Project supported by the National Natural Science Foundation of China (Nos. 21773257, 21373233 and 91441108)the National Natural Science Foundation of China 21373233

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  • G-Quadruplex can be a promising candidate as molecular electronic device due to the ability of transferring hole. Extensive studies have reported that fast deprotonation of guanine radical cation (G·+) to form a neutral radical G(-H)· is the most important reaction in competition with hole transfer in DNA, hindering potential applications of DNA in molecular electronics. We thus carry out joint experimental and theoretical studies on deprotonation of G·+ in human telomere G-quadruplex AG3(T2AG3)3by using nanosecond laser flash photolysis and quantum chemical calculations. Upon 355 nm laser photolysis of Na2S2O8, instantaneously generated SO4·- radical oxidizes G base in the G-quadruplex to G·+. In the time-resolved absorption spectra that record the reaction of G-quadruplex with SO4·- at different temperatures, the transient absorptions of G(N(2)-H)· featured by absorption band at 640 nm are observed. It turns out that the G-quadruplex deprotonation product is G(N(2)-H)· and the deprotonation site is thereby validated to be amino proton. To obtain the activation energy of the G·+ deprotonation in G-quadruplex, the N(2)-H deprotonation rate constants at different temperatures varying from 280 to 300 K in steps 5 K are measured at a high G-quadruplex concentration, where the deprotonation has been proved to be the rate-limiting step in our previous work. Based upon Arrhenius equation, the deprotonation activation energy of G·+ in G-quadruplex is determined to be 20.0±1.0 kJ/mol. Further, the potential energy profile for the G·+ deprotonation in G-quadruplex is calculated at M062X/6-31G(d) level by carefully taking into account hydration environment of G·+ in G-quadruplex. The calculated energy barrier of 26.4 kJ/mol matches with the measured activation energy value, indicating the calculated potential energy profile can describe the deprotonation process of G·+ in the G-quadruplex. These theoretical and experimental results provide valuable dynamics information and mechanistic insights for potential applications of DNA structures in electronic device.
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    1. [1]

      Hall, D. B.; Holmlin, R. E.; Barton, J. K. Nature 1996, 382, 731.  doi: 10.1038/382731a0

    2. [2]

      Wang, X. X.; Gu, Y.; Chen, D. X.; Fang, Y. F.; Huang, Y. P. Acta Chim. Sinica 2010, 68, 2463.
       

    3. [3]

      Lu, Y. M.; Ou, Z. B.; Hu, W.; Le, X. Y. Acta Chim. Sinica 2012, 70, 973.  doi: 10.3969/j.issn.0253-2409.2012.08.011
       

    4. [4]

      Shao, B.; Mao, L.; Qu, N.; Wang, Y.-F.; Gao, H.-Y.; Li, F.; Qin, L.; Shao, J.; Huang, C.-H.; Xu, D.; Xie, L.-N.; Shen, C.; Zhou, X.; Zhu, B.-Z. Free Radical Biol. Med. 2017, 104 (Suppl. C), 54.
       

    5. [5]

      Kawai, K.; Majima, T. Acc. Chem. Res. 2013, 46, 2616.  doi: 10.1021/ar400079s

    6. [6]

      Endres, R. G.; Cox, D. L.; Singh, R. R. P. Rev. Mod. Phys. 2004, 76, 195.  doi: 10.1103/RevModPhys.76.195

    7. [7]

      Okamoto, A.; Tanaka, K.; Saito, I. J. Am. Chem. Soc. 2003, 125, 5066.  doi: 10.1021/ja0294008

    8. [8]

      Barnett, R. N.; Cleveland, C. L.; Joy, A.; Landman, U.; Schuster, G. B. Science 2001, 294, 567.  doi: 10.1126/science.1062864

    9. [9]

      Giese, B. Acc. Chem. Res. 2000, 33, 631.  doi: 10.1021/ar990040b

    10. [10]

      Faraggi, M.; Broitman, F.; Trent, J. B.; Klapper, M. H. J. Phys. Chem. 1996, 100, 14751.  doi: 10.1021/jp960590g

    11. [11]

      Cleveland, C. L.; Barnett, R. N.; Bongiorno, A.; Joseph, J.; Liu, C. S.; Schuster, G. B.; Landman, U. J. Am. Chem. Soc. 2007, 129, 8408.  doi: 10.1021/ja071893z

    12. [12]

      Kawai, K.; Osakada, Y.; Majima, T. ChemPhysChem 2009, 10, 1766  doi: 10.1002/cphc.v10:11

    13. [13]

      Kobayashi, K.; Yamagami, R.; Tagawa, S. J. Phys. Chem. B 2008, 112, 10752.  doi: 10.1021/jp804005t

    14. [14]

      Wu, L. D.; Liu, K. H.; Jie, J. L.; Song, D.; Su, H. M. J. Am. Chem. Soc. 2015, 137, 259.  doi: 10.1021/ja510285t

    15. [15]

      Candeias, L. P.; Steenken, S. J. Am. Chem. Soc. 1989, 111, 1094.  doi: 10.1021/ja00185a046

    16. [16]

      Candeias, L. P.; Steenken, S. J. Am. Chem. Soc. 1992, 114, 699.  doi: 10.1021/ja00028a043

    17. [17]

      Kobayashi, K.; Tagawa, S. J. Am. Chem. Soc. 2003, 125, 10213.  doi: 10.1021/ja036211w

    18. [18]

      Steenken, S.; Reynisson, J. Phys. Chem. Chem. Phys. 2010, 12, 9088.  doi: 10.1039/c002528c

    19. [19]

      Cerón-Carrasco, J. P.; Requena, A.; Perpète, E. A.; Michaux, C.; Jacquemin, D. J. Phys. Chem. B 2010, 114, 13439.  doi: 10.1021/jp101711z

    20. [20]

      Takada, T.; Kawai, K.; Fujitsuka, M.; Majima, T. Proc. Natl. Acad. Sci. U. S. A. 2004, 101, 14002.  doi: 10.1073/pnas.0402756101

    21. [21]

      Choi, J.; Park, J.; Tanaka, A.; Park, M. J.; Jang, Y. J.; Fujitsuka, M.; Kim, S. K.; Majima, T. Angew. Chem., Int. Ed. 2013, 52, 1134.  doi: 10.1002/anie.201208149

    22. [22]

      Delaney, S.; Barton, J. K. Biochemistry 2003, 42, 14159.  doi: 10.1021/bi0351965

    23. [23]

      Szalai, V. A.; Thorp, H. H. J. Am. Chem. Soc. 2000, 122, 4524.  doi: 10.1021/ja0001355

    24. [24]

      Song, D.; Yang, W.; Qin, T.; Wu, L.; Liu, K.; Su, H. J. Phys. Chem. Lett. 2014, 5, 2259.  doi: 10.1021/jz501040a

    25. [25]

      Wolter, M.; Elstner, M.; Kubař, T. J. Chem. Phys. 2013, 139, 125102.  doi: 10.1063/1.4821594

    26. [26]

      Barnett, R. N.; Bongiorno, A.; Cleveland, C. L.; Joy, A.; Landman, U.; Schuster, G. B. J. Am. Chem. Soc. 2006, 128, 10795.  doi: 10.1021/ja061795y

    27. [27]

      Rokhlenko, Y.; Geacintov, N. E.; Shafirovich, V. J. Am. Chem. Soc. 2012, 134, 4955.  doi: 10.1021/ja212186w

    28. [28]

      Rokhlenko, Y.; Cadet, J.; Geacintov, N. E.; Shafirovich, V. J. Am. Chem. Soc. 2014, 136, 5956.  doi: 10.1021/ja412471u

    29. [29]

      Saintome, C.; Amrane, S.; Mergny, J. L.; Alberti, P. Nucleic Acids Res. 2016, 44, 2926.  doi: 10.1093/nar/gkw003

    30. [30]

      Wu, L. D.; Jie, J. L.; Liu, K. H.; Su, H. M. Acta Chim. Sinica 2014, 72, 1182.
       

    31. [31]

      Morikawa, M.; Kino, K.; Oyoshi, T.; Suzuki, M.; Kobayashi, T.; Miyazawa, H. Bioorg. Med. Chem. Lett. 2015, 25, 3359.  doi: 10.1016/j.bmcl.2015.05.050

    32. [32]

      Zhao, Y.; Truhlar, D. G. J. Phys. Chem. A 2008, 112, 1095.
       

    33. [33]

      Galano, A.; Alvarez-Idaboy, J. R. Phys. Chem. Chem. Phys. 2012, 14, 12476.  doi: 10.1039/c2cp40799j

    34. [34]

      Li, J.; Fu, K.-X.; Li, X.-Y. J. Mol. Struct.:THEOCHEM. 2007, 819, 32.  doi: 10.1016/j.theochem.2007.05.031

    35. [35]

      Li, X.; Cai, Z.; Sevilla, M. D. J. Phys. Chem. B 2001, 105, 10115.  doi: 10.1021/jp012364z

    36. [36]

      Kumar, A.; Sevilla, M. D. J. Phys. Chem. B 2009, 113, 11359.  doi: 10.1021/jp903403d

    37. [37]

      Horvath, M. P.; Schultz, S. C. J. Mol. Biol. 2001, 310, 367.  doi: 10.1006/jmbi.2001.4766

    38. [38]

      Parkinson, G. N.; Lee, M. P. H.; Neidle, S. Nature 2002, 417, 876.  doi: 10.1038/nature755

    39. [39]

      Marx, D.; Tuckerman, M. E.; Hutter, J.; Parrinello, M. Nature 1999, 397, 601.  doi: 10.1038/17579

    40. [40]

      Berkelbach, T. C.; Lee, H. S.; Tuckerman, M. E. Phys. Rev. Lett. 2009, 238302.

    41. [41]

      Frisch, M. J. ; Trucks, G. W. ; Schlegel, H. B. ; Scuseria, G. E. ; Robb, M. A. ; Cheeseman, J. R. ; Montgomery, J. A. ; Vreven, T. ; Kudin, K. N. ; Burant, J. C. ; Millam, J. M. ; Iyengar, S. S. ; Tomasi, J. ; Barone, V. ; Mennucci, B. ; Cossi, M. ; Scalmani, G. ; Rega, N. ; Petersson, G. A. ; Nakatsuji, H. ; Hada, M. ; Ehara, M. ; Toyota, K. ; Fukuda, R. ; Ha-segawa, J. ; Ishida, M. ; Nakajima, T. ; Honda, Y. ; Kitao, O. ; Nakai, H. ; Klene, M. ; Li, X. ; Knox, J. E. ; Hratchian, H. P. ; Cross, J. B. ; Bakken, V. ; Adamo, C. ; Jaramillo, J. ; Gomperts, R. ; Stratmann, R. E. ; Yazyev, O. ; Austin, A. J. ; Cammi, R. ; Pomelli, C. ; Ochterski, J. W. ; Ayala, P. Y. ; Morokuma, K. ; Voth, G. A. ; Salvador, P. ; Dannen-berg, J. J. ; Zakrzewski, V. G. ; Dapprich, S. ; Daniels, A. D. ; Strain, M. C. ; Farkas, O. ; Malick, D. K. ; Rabuck, A. D. ; Raghavachari, K. ; Foresman, J. B. ; Ortiz, J. V. ; Cui, Q. ; Baboul, A. G. ; Clifford, S. ; Cioslowski, J. ; Stefanov, B. B. ; Liu, G. ; Liashenko, A. ; Piskorz, P. ; Komaromi, I. ; Martin, R. L. ; Fox, D. J. ; Keith, T. ; Al-Laham, M. A. ; Peng, C. Y. ; Nanayakkara, A. ; Challacombe, M. ; Gill, P. M. W. ; Johnson, B. ; Chen, W. ; Wong, M. W. ; Gonzalez, C. ; Pople, J. A. Gaussian 09, Revision A. 01, Gaussian, Inc., Wallingford, CT, 2009.

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