Citation:
HOU Ruo-Bing, TANG Zong-Xiang, FAN You-Jun, YI Xiang-Hui, WANG Bei-Bei, SUN Yan-Li. Radicals Created fromthe Reactions of 2’-Deoxyadenosine-5’-monophosphate with Hydroxyl Radical[J]. Acta Physico-Chimica Sinica,
;2013, 29(09): 1937-1944.
doi:
10.3866/PKU.WHXB201307023
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The radicals generated fromreactions of 2'-deoxyadenosine-5'-monophosphate (dAMP) with an HO· radical were studied by the reliable B3LYP/DZP++ method. The results show that the initial primary products are the radicals of HO· addition at the C8 and C4 sites of dAMP and those of dehydrogenation from the NH2 moiety of dAMP. Moreover, the initial radicals of the C4 site adducts of HO· tend thermodynamically to take place dehydration reactions that yields strong oxidizing, H-abstraction radicals fromthe NH2 group of dAMP. The electrostatic repeller interaction between the dAMP molecule and HO· results in HO· addition radicals of the C2 atomof dAMP to be a by-product, even if they are relative stable species. These theoretical results agree well with available experimental observations and give proper explanations for some experimental results.
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-
-
[1]
(1) Po zelski, W. K.; Tullius, T. D. Chem. Rev. 1998, 98, 1089 andreferences therein. doi: 10.1021/cr960437i
-
[2]
(2) Follmann, H. Chem. Soc. Rev. 2004, 33, 225. doi: 10.1039/a907361b
-
[3]
(3) Ito, T.; Kuno, S.; Uchida, T.; Fujita, S.; Nishimoto, S. J. Phys. Chem. B 2009, 113, 389. doi: 10.1021/jp801976t
-
[4]
(4) Kumimova, M. K.; Cowan, A. J.; Matousek, P.; Parker, A. W.;Sun, X. Z.; Towrie, M.; George, M. W. Proc. Natl. Acad. Sci. U. S. A. 2006, 103, 2150. doi: 10.1073/pnas.0506860103
-
[5]
(5) Vieira, A. J. S. C.; Steenken, S. J. Am. Chem. Soc. 1990, 112,6986. doi: 10.1021/ja00175a036
-
[6]
(6) Liu, J.; Petzold, C. J.; Ramirez-Arizmendi, L. E.; Perez, J.;Kenttäemaa, H. J. Am. Chem. Soc. 2005, 127, 12758. doi: 10.1021/ja052766a
-
[7]
(7) Adhikary, A.; Becker, D.; Collins, S.; Koppen, J.; Sevilla, M. D.Nucleic Acids Res. 2006, 34, 1501. doi: 10.1093/nar/gkl026
-
[8]
(8) Lahoud, G. A.; Hitt, A. L.; Bryant-Friedrich, A. C. Chem. Res. Toxicol. 2006, 19, 1630. doi: 10.1021/tx060174f
-
[9]
(9) von Sonntag, C. Free-Radical-Induced DNA Damage and Its Repair; Springer-Verlag: Berlin Heidelberg, 2006; pp 9-35.
-
[10]
(10) Schyman, P.; Eriksson, L. A.; Laaksonen, A. J. Phys. Chem. B2009, 113, 6574. doi: 10.1021/jp9007569
-
[11]
(11) Lind, M. C.; Richardson, N. A.;Wheeler, S. E.; Schaefer, H. F.J. Phys. Chem. B 2007, 111, 5525. doi: 10.1021/jp0714926
-
[12]
(12) Reynisson, J.; Steenken, S. Phys. Chem. Chem. Phys. 2002, 4,5346. doi: 10.1039/b204842f
-
[13]
(13) Li, M. J.; Liu, L.; Wei, K.; Fu, Y.; Guo, Q. X. J. Phys. Chem. B2006, 110, 13582. doi: 10.1021/jp060331j
-
[14]
(14) Karol, M.; Roman, O. J. Am. Chem. Soc. 1994, 116, 232. doi: 10.1021/ja00080a027
-
[15]
(15) Karwowski, B. T. Cent. Eur. J. Chem. 2008, 6, 450. doi: 10.2478/s11532-008-0038-z
-
[16]
(16) Galano, A.; Alvarez-Ldaboy, J. R. Org. Lett. 2009, 11, 5114. doi: 10.1021/ol901862h
-
[17]
(17) Shukla, P. K.; Kumar, N.; Mishra, P. C. Int. J. Quantum Chem.2009, 111, 2160.
-
[18]
(18) Chen, Q.; Gu, J.; Compaan, K. R.; Schaefer, H. F. Chem. Eur. J.2010, 16, 11848. doi: 10.1002/chem.201001236
-
[19]
(19) Evangelista, F. A.; Schaefer, H. F. J. Phys. Chem. A 2004, 108,10258. doi: 10.1021/jp040361r
-
[20]
(20) Saenger, W. Principles of Nucleic Acid Structure; Sringer-Verlag: NewYork, 1984; pp 253-281.
-
[21]
(21) Rienstra-Kiracofe, J. C.; Tschumper, G. S.; Schaefer, H. F.;Nandi, S.; Ellison, G. B. Chem. Rev. 2002, 102, 231. doi: 10.1021/cr990044u
-
[22]
(22) Reed, A. E.; Weinhold, F. J. Chem. Phys. 1983, 78, 4066. doi: 10.1063/1.445134
-
[23]
(23) Reed, A. E.; Weinstock, R. B.; Weinhold, F. J. Chem. Phys.1985, 83, 735. doi: 10.1063/1.449486
-
[24]
(24) Cossi, M.; Barone, V.; Cammi, R.; Tomasi, J. Chem. Phys. Lett.1996, 255, 327. doi: 10.1016/0009-2614(96)00349-1
-
[25]
(25) Frisch, M. J.; Trucks, G. W.; Schlegel, H. B.; et al. Gaussian 03,Revision B.03; Gaussian Inc.: Pittsburgh, PA, 2003.
-
[26]
(26) Boussicault, F.; Kaloudis, P.; Caminal, C.; Mulazzani, Q. G.;Chatgilialoglu, C. J. Am. Chem. Soc. 2008, 130, 8377. doi: 10.1021/ja800763j
-
[27]
(27) von Sonntag, C. Free-Radical-Induced DNADamage asApproached by Quantum-Mechanical and Monte CarloCalculations: An Overview fromthe Standpoint of anExperimentalist. In Advances in Quantum Chemistry; Brändas,E.; Sabin, J. R. Eds.; Elsevier Inc.: NewYork, 2007; Vol. 52, pp5-17.
-
[28]
(28) Náray-Szabó, G.; Ferenczy, G. G. Chem. Rev. 1995, 95,829. doi: 10.1021/cr00036a002
-
[29]
(29) Lu, T.; Chen, F. J. Comput. Chem. 2012, 33, 580. doi: 10.1002/jcc.v33.5
-
[30]
(30) Lu, T. Multiwfn, Version 2.4; Beijing, 2012.
-
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