Sequence dependence of DNA translocation through a Nanopore
Sequence dependence of DNA translocation through a Nanopore
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DOI：
10.1103/physrevlett.100.058101
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发表时间：
2008-02-08
影响因子：
8.6
通讯作者：
Bhattacharya, Aniket
中科院分区：
文献类型：
--
作者：
Luo, Kaifu;Ala-Nissila, Tapio;Bhattacharya, Aniket
我们调查的DNA易位通过纳米孔使用二维Langevin动力学模拟的动力学，侧重于易位动力学的依赖于DNA序列的细节。在这项工作中研究的DNA分子是由两种类型的碱基A和C构建的，这两种碱基之前已经被证明与孔具有不同的相互作用。我们研究了具有不同n值的重复块A（n）C（n）的DNA，发现易位时间强烈地依赖于块长度2n以及碱基首先进入孔的方向。因此，我们证明了通过纳米孔测量DNA的易位动力学可以产生关于其结构的详细信息。我们还发现，嵌段序列的周期性包含在单个核苷酸在孔内的停留时间的周期性中。
We investigate the dynamics of DNA translocation through a nanopore using 2D Langevin dynamics simulations, focusing on the dependence of the translocation dynamics on the details of DNA sequences. The DNA molecules studied in this work are built from two types of bases A and C, which have been shown previously to have different interactions with the pore. We study DNA with repeating blocks A(n)C(n) for various values of n and find that the translocation time depends strongly on the block length 2n as well as on the orientation of which base enters the pore first. Thus, we demonstrate that the measurement of translocation dynamics of DNA through a nanopore can yield detailed information about its structure. We have also found that the periodicity of the block sequences is contained in the periodicity of the residence time of the individual nucleotides inside the pore.