Literature DB >> 27548572

Hydration Dynamics of a Peripheral Membrane Protein.

Olivier Fisette1, Christopher Päslack1,2, Ryan Barnes3, J Mario Isas4, Ralf Langen4, Matthias Heyden2, Songi Han3, Lars V Schäfer1.   

Abstract

Water dynamics in the hydration shell of the peripheral membrane protein annexin B12 were studied using MD simulations and Overhauser DNP-enhanced NMR. We show that retardation of water motions near phospholipid bilayers is extended by the presence of a membrane-bound protein, up to around 10 Å above that protein. Near the membrane surface, electrostatic interactions with the lipid head groups strongly slow down water dynamics, whereas protein-induced water retardation is weaker and dominates only at distances beyond 10 Å from the membrane surface. The results can be understood from a simple model based on additive contributions from the membrane and the protein to the activation free energy barriers of water diffusion next to the biomolecular surfaces. Furthermore, analysis of the intermolecular vibrations of the water network reveals that retarded water motions near the membrane shift the vibrational modes to higher frequencies, which we used to identify an entropy gradient from the membrane surface toward the bulk water. Our results have implications for processes that take place at lipid membrane surfaces, including molecular recognition, binding, and protein-protein interactions.

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Year:  2016        PMID: 27548572      PMCID: PMC5519773          DOI: 10.1021/jacs.6b07005

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  48 in total

1.  Biological water at the protein surface: dynamical solvation probed directly with femtosecond resolution.

Authors:  Samir Kumar Pal; Jorge Peon; Ahmed H Zewail
Journal:  Proc Natl Acad Sci U S A       Date:  2002-02-12       Impact factor: 11.205

2.  Thermodynamics of liquids: standard molar entropies and heat capacities of common solvents from 2PT molecular dynamics.

Authors:  Tod A Pascal; Shiang-Tai Lin; William A Goddard
Journal:  Phys Chem Chem Phys       Date:  2010-11-23       Impact factor: 3.676

3.  Comparison of multiple Amber force fields and development of improved protein backbone parameters.

Authors:  Viktor Hornak; Robert Abel; Asim Okur; Bentley Strockbine; Adrian Roitberg; Carlos Simmerling
Journal:  Proteins       Date:  2006-11-15

4.  GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit.

Authors:  Sander Pronk; Szilárd Páll; Roland Schulz; Per Larsson; Pär Bjelkmar; Rossen Apostolov; Michael R Shirts; Jeremy C Smith; Peter M Kasson; David van der Spoel; Berk Hess; Erik Lindahl
Journal:  Bioinformatics       Date:  2013-02-13       Impact factor: 6.937

5.  Water translational motion at the bilayer interface: an NMR relaxation dispersion measurement.

Authors:  M W Hodges; D S Cafiso; C F Polnaszek; C C Lester; R G Bryant
Journal:  Biophys J       Date:  1997-11       Impact factor: 4.033

6.  Magnitude and molecular origin of water slowdown next to a protein.

Authors:  Fabio Sterpone; Guillaume Stirnemann; Damien Laage
Journal:  J Am Chem Soc       Date:  2012-02-22       Impact factor: 15.419

7.  The influence of a protein on water dynamics in its vicinity investigated by molecular dynamics simulation.

Authors:  R Abseher; H Schreiber; O Steinhauser
Journal:  Proteins       Date:  1996-07

8.  Anomalous diffusion of water molecules in hydrated lipid bilayers.

Authors:  Jhuma Das; Elijah Flenner; Ioan Kosztin
Journal:  J Chem Phys       Date:  2013-08-14       Impact factor: 3.488

9.  Improved side-chain torsion potentials for the Amber ff99SB protein force field.

Authors:  Kresten Lindorff-Larsen; Stefano Piana; Kim Palmo; Paul Maragakis; John L Klepeis; Ron O Dror; David E Shaw
Journal:  Proteins       Date:  2010-06

10.  Derivation and systematic validation of a refined all-atom force field for phosphatidylcholine lipids.

Authors:  Joakim P M Jämbeck; Alexander P Lyubartsev
Journal:  J Phys Chem B       Date:  2012-03-01       Impact factor: 2.991

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  15 in total

1.  Structural Relaxation Processes and Collective Dynamics of Water in Biomolecular Environments.

Authors:  Sara Capponi; Stephen H White; Douglas J Tobias; Matthias Heyden
Journal:  J Phys Chem B       Date:  2019-01-02       Impact factor: 2.991

2.  Mechanical Unfolding of Spectrin Repeats Induces Water-Molecule Ordering.

Authors:  Sarah J Moe; Alessandro Cembran
Journal:  Biophys J       Date:  2020-01-16       Impact factor: 4.033

3.  Spatially Heterogeneous Surface Water Diffusivity around Structured Protein Surfaces at Equilibrium.

Authors:  Ryan Barnes; Sheng Sun; Yann Fichou; Frederick W Dahlquist; Matthias Heyden; Songi Han
Journal:  J Am Chem Soc       Date:  2017-11-27       Impact factor: 15.419

4.  Structure of Membrane-Bound Huntingtin Exon 1 Reveals Membrane Interaction and Aggregation Mechanisms.

Authors:  Meixin Tao; Nitin K Pandey; Ryan Barnes; Songi Han; Ralf Langen
Journal:  Structure       Date:  2019-08-26       Impact factor: 5.006

Review 5.  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

6.  Protein Solvent Shell Structure Provides Rapid Analysis of Hydration Dynamics.

Authors:  Jayangika N Dahanayake; Elaheh Shahryari; Kirsten M Roberts; Micah E Heikes; Chandana Kasireddy; Katie R Mitchell-Koch
Journal:  J Chem Inf Model       Date:  2019-03-22       Impact factor: 4.956

7.  Fourier Transform-Ion Cyclotron Resonance Mass Spectrometry as a Platform for Characterizing Multimeric Membrane Protein Complexes.

Authors:  Jennifer L Lippens; Michael Nshanian; Chris Spahr; Pascal F Egea; Joseph A Loo; Iain D G Campuzano
Journal:  J Am Soc Mass Spectrom       Date:  2017-10-02       Impact factor: 3.109

8.  Rapid LC-MS Method for Accurate Molecular Weight Determination of Membrane and Hydrophobic Proteins.

Authors:  Jennifer L Lippens; Pascal F Egea; Chris Spahr; Amit Vaish; James E Keener; Michael T Marty; Joseph A Loo; Iain D G Campuzano
Journal:  Anal Chem       Date:  2018-10-31       Impact factor: 6.986

Review 9.  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

10.  The key role of solvent in condensation: Mapping water in liquid-liquid phase-separated FUS.

Authors:  Jonas Ahlers; Ellen M Adams; Verian Bader; Simone Pezzotti; Konstanze F Winklhofer; Jörg Tatzelt; Martina Havenith
Journal:  Biophys J       Date:  2021-01-28       Impact factor: 4.033

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