The influence of external electric fields on proton transfer tautomerism in the guanine-cytosine base pair

被引:16
|
作者
Gheorghiu, Alexander [1 ]
Coveney, Peter V. [1 ,2 ]
Arabi, Alya A. [1 ,3 ]
机构
[1] UCL, Ctr Computat Sci, 20 Gordon St, London WC1H 0AJ, England
[2] Univ Amsterdam, Informat Inst, POB 94323, NL-1090 GH Amsterdam, Netherlands
[3] United Arab Emirates Univ, Coll Med & Hlth Sci, Biochem Dept, POB 17666, Al Ain, U Arab Emirates
基金
英国工程与自然科学研究理事会; 欧盟地平线“2020”;
关键词
TRANSITION-STATE THEORY; FINDING SADDLE-POINTS; FORCE-FIELD; DNA; DYNAMICS; ENERGY; SELECTIVITY; ABLATION; MUTATION; THERAPY;
D O I
10.1039/d0cp06218a
中图分类号
O64 [物理化学(理论化学)、化学物理学];
学科分类号
070304 ; 081704 ;
摘要
The Watson-Crick base pair proton transfer tautomers would be widely considered as a source of spontaneous mutations in DNA replication if not for their short lifetimes and thermodynamic instability. This work investigates the effects external electric fields have on the stability of the guanine-cytosine proton transfer tautomers within a realistic strand of aqueous DNA using a combination of ensemble-based classical molecular dynamics (MD) coupled to quantum mechanics/molecular mechanics (QM/MM). Performing an ensemble of calculations accounts for the stochastic aspects of the simulations while allowing for easier identification of systematic errors. The methodology applied in this work has previously been shown to estimate base pair proton transfer rate coefficients that are in good agreement with recent experimental data. A range of electric fields in the order of 10(4) to 10(9) V m(-1) is investigated based on their real-life medicinal applications which include gene therapy and cancer treatments. The MD trajectories confirm that electric fields up to 1.00 x 10(9) V m(-1) have a negligible influence on the structure of the base pairs within DNA. The QM/MM results show that the application of large external electric fields (1.00 x 10(9) V m(-1)) parallel to the hydrogen bonds increases the thermodynamic population of the tautomers by up to one order of magnitude; moreover, the lifetimes of the tautomers remain insignificant when compared to the timescale of DNA replication.
引用
收藏
页码:6252 / 6265
页数:14
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