Literature DB >> 19436490

Solvation dynamics of biomolecules: modeling and terahertz experiments.

David M Leitner, Martin Gruebele, Martina Havenith.   

Abstract

The role of water in biomolecule dynamics has attracted much interest over the past decade, due in part to new probes of biomolecule-water interactions and developments in molecular simulations. Terahertz (THz) spectroscopy, among the most recent experimental methods brought to bear on this problem, is able to detect even small solute induced changes of the collective water network dynamics at the biomolecule-water interface. THz measurements reveal that proteins influence up to 1000 water molecules in their surroundings, and that even small saccharides influence the dynamics of hundreds of surrounding water molecules. The THz spectrum of a protein is sensitive to mutation and depends on the surface charge and flexibility of the protein. Influence on the solvation shell appears most pronounced for native wildtype proteins and decreases upon partial unfolding or mutation. THz spectra of solvated saccharides reveal that the number of water molecules coupled dynamically to a saccharide, forming a dynamical hydration shell around it, is related to the number of exposed oxygen atoms on the solute. The thickness of this layer appears correlated with the bioprotection efficiency of the saccharide. All findings support the thesis of a long-range dynamic coupling between biomolecule and solvent.

Entities:  

Year:  2008        PMID: 19436490      PMCID: PMC2645579          DOI: 10.2976/1.2976661

Source DB:  PubMed          Journal:  HFSP J        ISSN: 1955-205X


  34 in total

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Journal:  Chem Rev       Date:  2000-06-14       Impact factor: 60.622

2.  Role of protein-water hydrogen bond dynamics in the protein dynamical transition.

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Journal:  Phys Rev Lett       Date:  2002-03-14       Impact factor: 9.161

3.  What causes hyperfluorescence: folding intermediates or conformationally flexible native states?

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Journal:  Biophys J       Date:  2002-07       Impact factor: 4.033

4.  Real-time detection of protein-water dynamics upon protein folding by terahertz absorption spectroscopy.

Authors:  Seung Joong Kim; Benjamin Born; Martina Havenith; Martin Gruebele
Journal:  Angew Chem Int Ed Engl       Date:  2008       Impact factor: 15.336

5.  Direct evidence for modified solvent structure within the hydration shell of a hydrophobic amino acid.

Authors:  A Pertsemlidis; A M Saxena; A K Soper; T Head-Gordon; R M Glaeser
Journal:  Proc Natl Acad Sci U S A       Date:  1996-10-01       Impact factor: 11.205

6.  High-resolution study of the three-dimensional structure of horse heart metmyoglobin.

Authors:  S V Evans; G D Brayer
Journal:  J Mol Biol       Date:  1990-06-20       Impact factor: 5.469

7.  Two crystal structures of the B1 immunoglobulin-binding domain of streptococcal protein G and comparison with NMR.

Authors:  T Gallagher; P Alexander; P Bryan; G L Gilliland
Journal:  Biochemistry       Date:  1994-04-19       Impact factor: 3.162

8.  Hydration dependence of conformational dielectric relaxation of lysozyme.

Authors:  Joseph Knab; Jing-Yin Chen; Andrea Markelz
Journal:  Biophys J       Date:  2006-01-20       Impact factor: 4.033

9.  Hydrogen bonding definitions and dynamics in liquid water.

Authors:  R Kumar; J R Schmidt; J L Skinner
Journal:  J Chem Phys       Date:  2007-05-28       Impact factor: 3.488

10.  Long-range influence of carbohydrates on the solvation dynamics of water--answers from terahertz absorption measurements and molecular modeling simulations.

Authors:  M Heyden; E Bründermann; U Heugen; G Niehues; D M Leitner; M Havenith
Journal:  J Am Chem Soc       Date:  2008-04-05       Impact factor: 15.419

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  10 in total

1.  Hydrogen Bond Network of Water around Protein Investigated with Terahertz and Infrared Spectroscopy.

Authors:  Keiichiro Shiraga; Yuichi Ogawa; Naoshi Kondo
Journal:  Biophys J       Date:  2016-12-20       Impact factor: 4.033

2.  Water in the orchestration of the cell machinery. Some misunderstandings: a short review.

Authors:  Pascale Mentré
Journal:  J Biol Phys       Date:  2011-06-11       Impact factor: 1.365

3.  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

4.  In Situ Observation of the Structure of Crystallizing Magnesium Sulfate Heptahydrate Solutions with Terahertz Transmission Spectroscopy.

Authors:  Qi Li; Johanna Kölbel; Margaret P Davis; Timothy M Korter; Andrew D Bond; Terrence Threlfall; J Axel Zeitler
Journal:  Cryst Growth Des       Date:  2022-05-20       Impact factor: 4.010

5.  Terahertz molecular resonance of cancer DNA.

Authors:  Hwayeong Cheon; Hee-Jin Yang; Sang-Hun Lee; Young A Kim; Joo-Hiuk Son
Journal:  Sci Rep       Date:  2016-11-15       Impact factor: 4.379

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.  Terahertz Spectroscopic Signatures of Microcystin Aptamer Solution Probed with a Microfluidic Chip.

Authors:  Mingkun Zhang; Zhongbo Yang; Mingjie Tang; Deqiang Wang; Huabin Wang; Shihan Yan; Dongshan Wei; Hong-Liang Cui
Journal:  Sensors (Basel)       Date:  2019-01-28       Impact factor: 3.576

8.  Classification of Amino Acids Using Hybrid Terahertz Spectrum and an Efficient Channel Attention Convolutional Neural Network.

Authors:  Bo Wang; Xiaoling Qin; Kun Meng; Liguo Zhu; Zeren Li
Journal:  Nanomaterials (Basel)       Date:  2022-06-20       Impact factor: 5.719

9.  Brain tumor imaging of rat fresh tissue using terahertz spectroscopy.

Authors:  Sayuri Yamaguchi; Yasuko Fukushi; Oichi Kubota; Takeaki Itsuji; Toshihiko Ouchi; Seiji Yamamoto
Journal:  Sci Rep       Date:  2016-07-26       Impact factor: 4.379

10.  Subwavelength hyperspectral THz studies of articular cartilage.

Authors:  Rayko I Stantchev; Jessica C Mansfield; Ryan S Edginton; Peter Hobson; Francesca Palombo; Euan Hendry
Journal:  Sci Rep       Date:  2018-05-02       Impact factor: 4.379

  10 in total

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