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Shen J, Wang H, Xia Y. A DFT study of hydrogen bond interactions between oxidative 2′-deoxyadenosine nucleotides and RNA nucleotides. Struct Chem 2012. [DOI: 10.1007/s11224-012-0108-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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ZHENG YAN, XUE YING, YAN GUOSEN. THE INFLUENCES OF OXIDATION AND CATIONIZATION ON THE N-GLYCOSIDIC BOND STABILITY OF 8-OXO-2′-DEOXYADENOSINE — A THEORETICAL STUDY. JOURNAL OF THEORETICAL & COMPUTATIONAL CHEMISTRY 2011. [DOI: 10.1142/s0219633609005349] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
This work is an attempt to evaluate theoretically the influences of oxidation and cationization on the N-glycosidic bond stability and the proton and sodium affinities on 8-oxo-2′-deoxyadenosine (8-oxodA) by using the density functional theory (DFT) B3LYP with basis set 6-31++G(d,p). This work shows that the cation attachment to 8-oxodA may modify the equilibrium geometry and bond dissociation. In all modified forms, the length of the N9–C1′ bond in which there is no intramolecular interaction, i.e. O8–H(Na)⋯O4′, increases relative to the neutral system 8-oxodA but that of others decreases. The analysis for the proton and sodium affinity energies indicates that the N1 and N3 atoms are the favorable sites for proton while the N1 atom is the favorable site for Na+. From the dissociation energies of the N-glycosidic bond, it has been found that the homolytic dissociation becomes more difficult upon introducing positive charge in the base ring. In contrast, these systems favor the heterolytic dissociation significantly. The influence is most prominent with the monocation obtained by O8 cationization.
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Affiliation(s)
- YAN ZHENG
- College of Chemistry, Key Lab of Green Chemistry and Technology in Ministry of Education, Sichuan University, Chengdu 610064, P. R. China
| | - YING XUE
- College of Chemistry, Key Lab of Green Chemistry and Technology in Ministry of Education, Sichuan University, Chengdu 610064, P. R. China
- State Key Laboratory of Biotherapy, Sichuan University, Chengdu 610041, P. R. China
| | - GUO-SEN YAN
- College of Chemistry, Key Lab of Green Chemistry and Technology in Ministry of Education, Sichuan University, Chengdu 610064, P. R. China
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Rauhut G. Recent Advances in Computing Heteroatom-Rich Five- and Six-Membered Ring Systems. ADVANCES IN HETEROCYCLIC CHEMISTRY 2001. [DOI: 10.1016/s0065-2725(01)81010-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 04/04/2023]
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