Literature DB >> 16854034

Ab initio study of the ionization of the DNA bases: ionization potentials and excited states of the cations.

Emilie Cauët1, Dominique Dehareng, Jacques Liévin.   

Abstract

The ionization of the four DNA bases is investigated by means of ab initio calculations. Accurate values of the gas-phase vertical and adiabatic ionization potentials (IP) are obtained at the MP2/6-31G(2d(0.8,alpha(d)),p) level of theory. The need of introducing extra polarization to the standard 6-31G(d,p) basis set is demonstrated by test calculations and an optimal value of alpha(d) = 0.1 is obtained. Ionization to electronically excited radical cations is also considered. The low-lying excited states of the cations are characterized for the first time. The topology of the corresponding potential energy surfaces is qualitatively described in terms of the stationary points (minima and saddle points) located on these surfaces. A conical intersection is characterized for the first time on the ground-state potential energy surface of all cations. It arises from the crossing of the adiabatic surfaces of the ground and first excited state at planar geometries. A nonplanar minimum is observed for the cytosine cation only. The geometry and electronic changes occurring along these surfaces are analyzed, leading to a comparison between the different nucleobase cations. The study of larger ionized systems related to DNA is rendered possible thanks to the optimized medium size basis set proposed in this work, as exemplified by the calculation of the IP of a stacked dimer of guanines.

Entities:  

Mesh:

Substances:

Year:  2006        PMID: 16854034     DOI: 10.1021/jp0617625

Source DB:  PubMed          Journal:  J Phys Chem A        ISSN: 1089-5639            Impact factor:   2.781


  6 in total

1.  Comment on "Excited states of DNA base pairs using long-range corrected time-dependent density functional theory".

Authors:  Michael D Sevilla
Journal:  J Phys Chem A       Date:  2009-10-15       Impact factor: 2.781

2.  The guanine cation radical: investigation of deprotonation states by ESR and DFT.

Authors:  Amitava Adhikary; Anil Kumar; David Becker; Michael D Sevilla
Journal:  J Phys Chem B       Date:  2006-11-30       Impact factor: 2.991

3.  Length and Energy Dependence of Low-Energy Electron-Induced Strand Breaks in Poly(A) DNA.

Authors:  Kenny Ebel; Ilko Bald
Journal:  Int J Mol Sci       Date:  2019-12-23       Impact factor: 5.923

4.  Electronic transitions and ESIPT kinetics of the thienyl-3-hydroxychromone nucleobase surrogate in DNA duplexes: a DFT/MD-TDDFT study.

Authors:  Alain Sougnabé; Daniel Lissouck; Fabien Fontaine-Vive; Mama Nsangou; Yves Mély; Alain Burger; Cyril A Kenfack
Journal:  RSC Adv       Date:  2020-02-20       Impact factor: 4.036

5.  Sequence and conformation effects on ionization potential and charge distribution of homo-nucleobase stacks using M06-2X hybrid density functional theory calculations.

Authors:  Marianne Rooman; René Wintjens
Journal:  J Biomol Struct Dyn       Date:  2013-04-13

6.  Sequence dependence of electron-induced DNA strand breakage revealed by DNA nanoarrays.

Authors:  Adrian Keller; Jenny Rackwitz; Emilie Cauët; Jacques Liévin; Thomas Körzdörfer; Alexandru Rotaru; Kurt V Gothelf; Flemming Besenbacher; Ilko Bald
Journal:  Sci Rep       Date:  2014-12-09       Impact factor: 4.379

  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.