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J Biol Chem. 2013 Sep 6;288(36):26290-26299. doi: 10.1074/jbc.M113.491209. Epub 2013 Jul 24.
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Exploring polymorphisms in B-DNA helical conformations.探索 B-DNA 螺旋构象中的多态性。
Nucleic Acids Res. 2012 Nov;40(21):10668-78. doi: 10.1093/nar/gks884. Epub 2012 Sep 24.
3
Label-free identification of single dielectric nanoparticles and viruses with ultraweak polarization forces.利用超弱偏振力对单个介电纳米颗粒和病毒进行无标记识别。
Nat Mater. 2012 Sep;11(9):808-16. doi: 10.1038/nmat3369. Epub 2012 Jul 8.
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Energies and pressures in viruses: contribution of nonspecific electrostatic interactions.病毒中的能量和压力:非特异性静电相互作用的贡献。
Phys Chem Chem Phys. 2012 Mar 21;14(11):3746-65. doi: 10.1039/c1cp22756d. Epub 2011 Dec 6.
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Electrostatic interactions in biological DNA-related systems.生物 DNA 相关系统中的静电相互作用。
Phys Chem Chem Phys. 2011 Jun 7;13(21):9942-68. doi: 10.1039/c0cp02796k. Epub 2011 Mar 23.
6
Method for estimating the internal permittivity of proteins using dielectric spectroscopy.利用介电谱法估算蛋白质的内部介电常数。
J Phys Chem B. 2011 Mar 17;115(10):2205-13. doi: 10.1021/jp1111873. Epub 2011 Feb 23.
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Interpreting protein/DNA interactions: distinguishing specific from non-specific and electrostatic from non-electrostatic components.解读蛋白质/DNA 相互作用:区分特异性和非特异性以及静电相互作用和非静电相互作用。
Nucleic Acids Res. 2011 Apr;39(7):2483-91. doi: 10.1093/nar/gkq984. Epub 2010 Nov 10.
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Molecular rearrangements involved in the capsid shell maturation of bacteriophage T7.噬菌体 T7 衣壳壳粒成熟过程中涉及的分子重排。
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Revisiting the association of cationic groove-binding drugs to DNA using a Poisson-Boltzmann approach.重新审视使用泊松-玻尔兹曼方法研究阳离子沟结合药物与 DNA 的相互作用。
Biophys J. 2010 Aug 4;99(3):879-86. doi: 10.1016/j.bpj.2010.04.066.
10
Molecular modeling and dynamics studies with explicit inclusion of electronic polarizability. Theory and applications.明确包含电子极化率的分子建模与动力学研究。理论与应用。
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DNA介电偏振特性的直接测量。

Direct measurement of the dielectric polarization properties of DNA.

作者信息

Cuervo Ana, Dans Pablo D, Carrascosa José L, Orozco Modesto, Gomila Gabriel, Fumagalli Laura

机构信息

Department of Structure of Macromolecules, Centro Nacional de Biotecnologia-Consejo Superior de Investigaciones Cientificas, Campus Cantoblanco, 28049 Madrid, Spain;

Institute for Research in Biomedicine-Barcelona Supercomputing Center Joint Research Program in Computational Biology, Institute for Research in Biomedicine-Barcelona, 08028 Barcelona, Spain;

出版信息

Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):E3624-30. doi: 10.1073/pnas.1405702111. Epub 2014 Aug 18.

DOI:10.1073/pnas.1405702111
PMID:25136104
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC4156767/
Abstract

The electric polarizability of DNA, represented by the dielectric constant, is a key intrinsic property that modulates DNA interaction with effector proteins. Surprisingly, it has so far remained unknown owing to the lack of experimental tools able to access it. Here, we experimentally resolved it by detecting the ultraweak polarization forces of DNA inside single T7 bacteriophages particles using electrostatic force microscopy. In contrast to the common assumption of low-polarizable behavior like proteins (εr ∼ 2-4), we found that the DNA dielectric constant is ∼ 8, considerably higher than the value of ∼ 3 found for capsid proteins. State-of-the-art molecular dynamic simulations confirm the experimental findings, which result in sensibly decreased DNA interaction free energy than normally predicted by Poisson-Boltzmann methods. Our findings reveal a property at the basis of DNA structure and functions that is needed for realistic theoretical descriptions, and illustrate the synergetic power of scanning probe microscopy and theoretical computation techniques.

摘要

由介电常数表示的DNA电极化率是调节DNA与效应蛋白相互作用的关键内在特性。令人惊讶的是,由于缺乏能够测量它的实验工具,到目前为止它仍然未知。在这里,我们通过使用静电力显微镜检测单个T7噬菌体颗粒内DNA的超弱极化力,通过实验解决了这个问题。与蛋白质(εr ∼ 2-4)的低极化行为这一常见假设相反,我们发现DNA介电常数约为8,大大高于衣壳蛋白的约3的值。最先进的分子动力学模拟证实了实验结果,这导致DNA相互作用自由能比泊松-玻尔兹曼方法通常预测的明显降低。我们的发现揭示了DNA结构和功能基础上的一种特性,这是现实理论描述所必需的,并说明了扫描探针显微镜和理论计算技术的协同作用。