Direct measurement of the dielectric polarization properties of DNA

被引:157
作者
Cuervo, Ana [1 ]
Dans, Pablo D. [2 ]
Carrascosa, Jose L. [1 ,3 ]
Orozco, Modesto [2 ,4 ]
Gomila, Gabriel [5 ,6 ]
Fumagalli, Laura [5 ,6 ]
机构
[1] CSIC, Ctr Nacl Biotecnol, Dept Struct Macromol, Madrid 28049, Spain
[2] Inst Res Biomed Barcelona, Inst Res Biomed Barcelona Supercomp Ctr Joint Res, Barcelona 08028, Spain
[3] Inst Madrileno Estudios Avanzados Nanociencia, Madrid 28049, Spain
[4] Univ Barcelona, Fac Biol, Dept Bioquim & Biol Mol, E-08028 Barcelona, Spain
[5] Inst Bioengn Catalunya, Barcelona 08028, Spain
[6] Univ Barcelona, Dept Elect, E-08028 Barcelona, Spain
基金
欧洲研究理事会;
关键词
DNA-ligand binding; DNA packaging; atomic force microscopy; atomistic simulations; Poisson-Boltzmann equation; MOLECULAR-DYNAMICS SIMULATIONS; EMPIRICAL FORCE-FIELD; B-DNA; NUCLEIC-ACIDS; ELECTROSTATIC INTERACTIONS; PROTEINS; CONSTANT; WATER; BACTERIOPHAGE; DEFORMATION;
D O I
10.1073/pnas.1405702111
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
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 (epsilon(r) similar to 2-4), we found that the DNA dielectric constant is similar to 8, considerably higher than the value of similar to 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.
引用
收藏
页码:E3624 / E3630
页数:7
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