Literature DB >> 26547148

Perspective: Watching low-frequency vibrations of water in biomolecular recognition by THz spectroscopy.

Yao Xu1, Martina Havenith1.   

Abstract

Terahertz (THz) spectroscopy has turned out to be a powerful tool which is able to shed new light on the role of water in biomolecular processes. The low frequency spectrum of the solvated biomolecule in combination with MD simulations provides deep insights into the collective hydrogen bond dynamics on the sub-ps time scale. The absorption spectrum between 1 THz and 10 THz of solvated biomolecules is sensitive to changes in the fast fluctuations of the water network. Systematic studies on mutants of antifreeze proteins indicate a direct correlation between biological activity and a retardation of the (sub)-ps hydration dynamics at the protein binding site, i.e., a "hydration funnel." Kinetic THz absorption studies probe the temporal changes of THz absorption during a biological process, and give access to the kinetics of the coupled protein-hydration dynamics. When combined with simulations, the observed results can be explained in terms of a two-tier model involving a local binding and a long range influence on the hydration bond dynamics of the water around the binding site that highlights the significance of the changes in the hydration dynamics at recognition site for biomolecular recognition. Water is shown to assist molecular recognition processes.

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Year:  2015        PMID: 26547148     DOI: 10.1063/1.4934504

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  18 in total

Review 1.  Locating and Navigating Energy Transport Networks in Proteins.

Authors:  Korey M Reid; David M Leitner
Journal:  Methods Mol Biol       Date:  2021

2.  Terahertz Electric Field-Induced Membrane Electroporation by Molecular Dynamics Simulations.

Authors:  Jingchao Tang; Hairong Yin; Jialu Ma; Wenfei Bo; Yang Yang; Jin Xu; Yiyao Liu; Yubin Gong
Journal:  J Membr Biol       Date:  2018-08-09       Impact factor: 1.843

3.  Water is an active matrix of life for cell and molecular biology.

Authors:  Philip Ball
Journal:  Proc Natl Acad Sci U S A       Date:  2017-06-07       Impact factor: 11.205

Review 4.  Why Proteins are Big: Length Scale Effects on Equilibria and Kinetics.

Authors:  Kenneth A Rubinson
Journal:  Protein J       Date:  2019-04       Impact factor: 2.371

5.  Nonthermal excitation effects mediated by sub-terahertz radiation on hydrogen exchange in ubiquitin.

Authors:  Yuji Tokunaga; Masahito Tanaka; Hitoshi Iida; Moto Kinoshita; Yuya Tojima; Koh Takeuchi; Masahiko Imashimizu
Journal:  Biophys J       Date:  2021-05-01       Impact factor: 3.699

6.  Detection of DNA oligonucleotides with base mutations by terahertz spectroscopy and microstructures.

Authors:  Mingjie Tang; Mingkun Zhang; Shihan Yan; Liangping Xia; Zhongbo Yang; Chunlei Du; Hong-Liang Cui; Dongshan Wei
Journal:  PLoS One       Date:  2018-01-24       Impact factor: 3.240

7.  High Sensitivity of T-Ray for Thrombus Sensing.

Authors:  Chi-Kuang Sun; Hui-Yuan Chen; Tzu-Fang Tseng; Borwen You; Ming-Liang Wei; Ja-Yu Lu; Ya-Lei Chang; Wan-Ling Tseng; Tzung-Dau Wang
Journal:  Sci Rep       Date:  2018-03-02       Impact factor: 4.379

8.  Extremely High Frequency Electromagnetic Fields Facilitate Electrical Signal Propagation by Increasing Transmembrane Potassium Efflux in an Artificial Axon Model.

Authors:  Simona D'Agostino; Chiara Della Monica; Eleonora Palizzi; Fabio Di Pietrantonio; Massimiliano Benetti; Domenico Cannatà; Marta Cavagnaro; Dariush Sardari; Pasquale Stano; Alfonsina Ramundo-Orlando
Journal:  Sci Rep       Date:  2018-06-18       Impact factor: 4.379

Review 9.  Gas-Phase Infrared Spectroscopy of Neutral Peptides: Insights from the Far-IR and THz Domain.

Authors:  Sjors Bakels; Marie-Pierre Gaigeot; Anouk M Rijs
Journal:  Chem Rev       Date:  2020-02-19       Impact factor: 60.622

10.  Dynamics of Solid Proteins by Means of Nuclear Magnetic Resonance Relaxometry.

Authors:  Danuta Kruk; Elzbieta Masiewicz; Anna M Borkowska; Pawel Rochowski; Pascal H Fries; Lionel M Broche; David J Lurie
Journal:  Biomolecules       Date:  2019-10-25
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