Literature DB >> 34687717

Long-range DNA-water interactions.

Abhishek K Singh1, Chengyuan Wen1, Shengfeng Cheng2, Nguyen Q Vinh3.   

Abstract

DNA functions only in aqueous environments and adopts different conformations depending on the hydration level. The dynamics of hydration water and hydrated DNA leads to rotating and oscillating dipoles that, in turn, give rise to a strong megahertz to terahertz absorption. Investigating the impact of hydration on DNA dynamics and the spectral features of water molecules influenced by DNA, however, is extremely challenging because of the strong absorption of water in the megahertz to terahertz frequency range. In response, we have employed a high-precision megahertz to terahertz dielectric spectrometer, assisted by molecular dynamics simulations, to investigate the dynamics of water molecules within the hydration shells of DNA as well as the collective vibrational motions of hydrated DNA, which are vital to DNA conformation and functionality. Our results reveal that the dynamics of water molecules in a DNA solution is heterogeneous, exhibiting a hierarchy of four distinct relaxation times ranging from ∼8 ps to 1 ns, and the hydration structure of a DNA chain can extend to as far as ∼18 Å from its surface. The low-frequency collective vibrational modes of hydrated DNA have been identified and found to be sensitive to environmental conditions including temperature and hydration level. The results reveal critical information on hydrated DNA dynamics and DNA-water interfaces, which impact the biochemical functions and reactivity of DNA.
Copyright © 2021 Biophysical Society. Published by Elsevier Inc. All rights reserved.

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Year:  2021        PMID: 34687717      PMCID: PMC8633837          DOI: 10.1016/j.bpj.2021.10.016

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  59 in total

1.  High-resolution waveguide THz spectroscopy of biological molecules.

Authors:  N Laman; S Sree Harsha; D Grischkowsky; Joseph S Melinger
Journal:  Biophys J       Date:  2007-10-12       Impact factor: 4.033

2.  Reconstructing the protein-water interface.

Authors:  V A Makarov; B K Andrews; B M Pettitt
Journal:  Biopolymers       Date:  1998-06       Impact factor: 2.505

3.  The spatial range of protein hydration.

Authors:  Filip Persson; Pär Söderhjelm; Bertil Halle
Journal:  J Chem Phys       Date:  2018-06-07       Impact factor: 3.488

4.  DNA Solvation Dynamics.

Authors:  Saumyak Mukherjee; Sayantan Mondal; Subhajit Acharya; Biman Bagchi
Journal:  J Phys Chem B       Date:  2018-10-16       Impact factor: 2.991

5.  A Raman scattering study of the interactions of DNA with its water of hydration.

Authors:  Scott A Lee; Nong-Jian Tao; Allan Rupprecht
Journal:  J Biomol Struct Dyn       Date:  2012-11-12

6.  Insights into Hydration Dynamics and Cooperative Interactions in Glycerol-Water Mixtures by Terahertz Dielectric Spectroscopy.

Authors:  Ali Charkhesht; Djamila Lou; Ben Sindle; Chengyuan Wen; Shengfeng Cheng; Nguyen Q Vinh
Journal:  J Phys Chem B       Date:  2019-10-03       Impact factor: 2.991

7.  Dynamical Disorder in the DNA Hydration Shell.

Authors:  Elise Duboué-Dijon; Aoife C Fogarty; James T Hynes; Damien Laage
Journal:  J Am Chem Soc       Date:  2016-06-09       Impact factor: 15.419

8.  Ordered water structure around a B-DNA dodecamer. A quantitative study.

Authors:  M L Kopka; A V Fratini; H R Drew; R E Dickerson
Journal:  J Mol Biol       Date:  1983-01-05       Impact factor: 5.469

9.  Dynamics of water and ions near DNA: comparison of simulation to time-resolved stokes-shift experiments.

Authors:  Sobhan Sen; Daniele Andreatta; Sergei Y Ponomarev; David L Beveridge; Mark A Berg
Journal:  J Am Chem Soc       Date:  2009-02-11       Impact factor: 15.419

Review 10.  Water Dynamics in the Hydration Shells of Biomolecules.

Authors:  Damien Laage; Thomas Elsaesser; James T Hynes
Journal:  Chem Rev       Date:  2017-03-01       Impact factor: 60.622

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  2 in total

1.  The origin and impact of bound water around intrinsically disordered proteins.

Authors:  Korey M Reid; Abhishek K Singh; Chowdhury R Bikash; Jessica Wei; Yftah Tal-Gan; Nguyen Q Vinh; David M Leitner
Journal:  Biophys J       Date:  2022-01-21       Impact factor: 4.033

2.  Probing Adaptation of Hydration and Protein Dynamics to Temperature.

Authors:  Luan C Doan; Jayangika N Dahanayake; Katie R Mitchell-Koch; Abhishek K Singh; Nguyen Q Vinh
Journal:  ACS Omega       Date:  2022-06-13
  2 in total

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