Literature DB >> 18093918

An extended dynamical hydration shell around proteins.

Simon Ebbinghaus1, Seung Joong Kim, Matthias Heyden, Xin Yu, Udo Heugen, Martin Gruebele, David M Leitner, Martina Havenith.   

Abstract

The focus in protein folding has been very much on the protein backbone and sidechains. However, hydration waters make comparable contributions to the structure and energy of proteins. The coupling between fast hydration dynamics and protein dynamics is considered to play an important role in protein folding. Fundamental questions of protein hydration include, how far out into the solvent does the influence of the biomolecule reach, how is the water affected, and how are the properties of the hydration water influenced by the separation between protein molecules in solution? We show here that Terahertz spectroscopy directly probes such solvation dynamics around proteins, and determines the width of the dynamical hydration layer. We also investigate the dependence of solvation dynamics on protein concentration. We observe an unexpected nonmonotonic trend in the measured terahertz absorbance of the five helix bundle protein lambda(6-85)* as a function of the protein: water molar ratio. The trend can be explained by overlapping solvation layers around the proteins. Molecular dynamics simulations indicate water dynamics in the solvation layer around one protein to be distinct from bulk water out to approximately 10 A. At higher protein concentrations such that solvation layers overlap, the calculated absorption spectrum varies nonmonotonically, qualitatively consistent with the experimental observations. The experimental data suggest an influence on the correlated water network motion beyond 20 A, greater than the pure structural correlation length usually observed.

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Year:  2007        PMID: 18093918      PMCID: PMC2410073          DOI: 10.1073/pnas.0709207104

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  18 in total

1.  Is the first hydration shell of lysozyme of higher density than bulk water?

Authors:  Franci Merzel; Jeremy C Smith
Journal:  Proc Natl Acad Sci U S A       Date:  2002-04-16       Impact factor: 11.205

2.  Cooperative water filling of a nonpolar protein cavity observed by high-pressure crystallography and simulation.

Authors:  Marcus D Collins; Gerhard Hummer; Michael L Quillin; Brian W Matthews; Sol M Gruner
Journal:  Proc Natl Acad Sci U S A       Date:  2005-11-03       Impact factor: 11.205

3.  Techniques: spectroscopy at a stretch.

Authors:  Robin M Hochstrasser
Journal:  Nature       Date:  2005-03-31       Impact factor: 49.962

4.  Large oxidation dependence observed in terahertz dielectric response for cytochrome c.

Authors:  J-Y Chen; J R Knab; J Cerne; A G Markelz
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2005-10-24

5.  Solvent-tuning the collapse and helix formation time scales of lambda(6-85)*.

Authors:  Charles Dumont; Yoshitaka Matsumura; Seung Joong Kim; Jinsong Li; Elena Kondrashkina; Hiroshi Kihara; Martin Gruebele
Journal:  Protein Sci       Date:  2006-11       Impact factor: 6.725

6.  Femtosecond dynamics of rubredoxin: tryptophan solvation and resonance energy transfer in the protein.

Authors:  Dongping Zhong; Samir Kumar Pal; Deqiang Zhang; Sunney I Chan; Ahmed H Zewail
Journal:  Proc Natl Acad Sci U S A       Date:  2001-12-18       Impact factor: 11.205

7.  Solute-induced retardation of water dynamics probed directly by terahertz spectroscopy.

Authors:  U Heugen; G Schwaab; E Bründermann; M Heyden; X Yu; D M Leitner; M Havenith
Journal:  Proc Natl Acad Sci U S A       Date:  2006-08-08       Impact factor: 11.205

8.  Protein states and proteinquakes.

Authors:  A Ansari; J Berendzen; S F Bowne; H Frauenfelder; I E Iben; T B Sauke; E Shyamsunder; R D Young
Journal:  Proc Natl Acad Sci U S A       Date:  1985-08       Impact factor: 11.205

9.  Direct observation of protein solvation and discrete disorder with experimental crystallographic phases.

Authors:  F T Burling; W I Weis; K M Flaherty; A T Brünger
Journal:  Science       Date:  1996-01-05       Impact factor: 47.728

10.  Hydration-coupled dynamics in proteins studied by neutron scattering and NMR: the case of the typical EF-hand calcium-binding parvalbumin.

Authors:  J M Zanotti; M C Bellissent-Funel; J Parello
Journal:  Biophys J       Date:  1999-05       Impact factor: 4.033

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  92 in total

1.  Temperature dependence of protein folding kinetics in living cells.

Authors:  Minghao Guo; Yangfan Xu; Martin Gruebele
Journal:  Proc Natl Acad Sci U S A       Date:  2012-06-04       Impact factor: 11.205

2.  Dissecting the THz spectrum of liquid water from first principles via correlations in time and space.

Authors:  Matthias Heyden; Jian Sun; Stefan Funkner; Gerald Mathias; Harald Forbert; Martina Havenith; Dominik Marx
Journal:  Proc Natl Acad Sci U S A       Date:  2010-06-21       Impact factor: 11.205

3.  Protein structural and surface water rearrangement constitute major events in the earliest aggregation stages of tau.

Authors:  Anna Pavlova; Chi-Yuan Cheng; Maia Kinnebrew; John Lew; Frederick W Dahlquist; Songi Han
Journal:  Proc Natl Acad Sci U S A       Date:  2015-12-28       Impact factor: 11.205

4.  Simulation-based fitting of protein-protein interaction potentials to SAXS experiments.

Authors:  Seung Joong Kim; Charles Dumont; Martin Gruebele
Journal:  Biophys J       Date:  2008-03-07       Impact factor: 4.033

5.  Folding domain B of protein A on a dynamically partitioned free energy landscape.

Authors:  Erik D Nelson; Nick V Grishin
Journal:  Proc Natl Acad Sci U S A       Date:  2008-01-29       Impact factor: 11.205

6.  Hydration dynamics as an intrinsic ruler for refining protein structure at lipid membrane interfaces.

Authors:  Chi-Yuan Cheng; Jobin Varkey; Mark R Ambroso; Ralf Langen; Songi Han
Journal:  Proc Natl Acad Sci U S A       Date:  2013-09-30       Impact factor: 11.205

7.  Two-dimensional Raman-terahertz spectroscopy of water.

Authors:  Janne Savolainen; Saima Ahmed; Peter Hamm
Journal:  Proc Natl Acad Sci U S A       Date:  2013-12-02       Impact factor: 11.205

8.  Thermal stability of lysozyme as a function of ion concentration: a reappraisal of the relationship between the Hofmeister series and protein stability.

Authors:  Jordan W Bye; Robert J Falconer
Journal:  Protein Sci       Date:  2013-09-20       Impact factor: 6.725

9.  Hydration dynamics in a partially denatured ensemble of the globular protein human alpha-lactalbumin investigated with molecular dynamics simulations.

Authors:  Neelanjana Sengupta; Simon Jaud; Douglas J Tobias
Journal:  Biophys J       Date:  2008-09-05       Impact factor: 4.033

10.  Cholesterol enhances surface water diffusion of phospholipid bilayers.

Authors:  Chi-Yuan Cheng; Luuk L C Olijve; Ravinath Kausik; Songi Han
Journal:  J Chem Phys       Date:  2014-12-14       Impact factor: 3.488

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