Literature DB >> 29580551

Determination of Dynamical Heterogeneity from Dynamic Neutron Scattering of Proteins.

Derya Vural1, Jeremy C Smith2, Henry R Glyde3.   

Abstract

Motional displacements of hydrogen (H) in proteins can be measured using incoherent neutron-scattering methods. These displacements can also be calculated numerically using data from molecular dynamics simulations. An enormous amount of data on the average mean-square motional displacement (MSD) of H as a function of protein temperature, hydration, and other conditions has been collected. H resides in a wide spectrum of sites in a protein. Some H are tightly bound to molecular chains, and the H motion is dictated by that of the chain. Other H are quite independent. As a result, there is a distribution of motions and MSDs of H within a protein that is denoted dynamical heterogeneity. The goal of this paper is to incorporate a distribution of MSDs into models of the H incoherent intermediate scattering function, I(Q,t), that is calculated and observed. The aim is to contribute information on the distribution as well as on the average MSD from comparison of the models with simulations and experiment. For example, we find that simulations of I(Q,t) in lysozyme are well reproduced if the distribution of MSDs is bimodal with two broad peaks rather than a single broad peak.
Copyright © 2018 Biophysical Society. All rights reserved.

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Year:  2018        PMID: 29580551      PMCID: PMC6129452          DOI: 10.1016/j.bpj.2018.02.024

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


  43 in total

Review 1.  How soft is a protein? A protein dynamics force constant measured by neutron scattering.

Authors:  G Zaccai
Journal:  Science       Date:  2000-06-02       Impact factor: 47.728

2.  Effect of the environment on the protein dynamical transition: a neutron scattering study.

Authors:  Alessandro Paciaroni; Stefania Cinelli; Giuseppe Onori
Journal:  Biophys J       Date:  2002-08       Impact factor: 4.033

3.  Dynamic instability of liquidlike motions in a globular protein observed by inelastic neutron scattering.

Authors: 
Journal:  Phys Rev Lett       Date:  1990-08-20       Impact factor: 9.161

4.  Quantitative model for the heterogeneity of atomic position fluctuations in proteins: a simulation study.

Authors:  Gerald R Kneller; Konrad Hinsen
Journal:  J Chem Phys       Date:  2009-07-28       Impact factor: 3.488

5.  Enzyme activity below the dynamical transition at 220 K.

Authors:  R M Daniel; J C Smith; M Ferrand; S Héry; R Dunn; J L Finney
Journal:  Biophys J       Date:  1998-11       Impact factor: 4.033

6.  Motional displacements in proteins: The origin of wave-vector-dependent values.

Authors:  Derya Vural; Liang Hong; Jeremy C Smith; Henry R Glyde
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2015-05-14

7.  Protein dynamics as seen by (quasi) elastic neutron scattering.

Authors:  S Magazù; F Mezei; P Falus; B Farago; E Mamontov; M Russina; F Migliardo
Journal:  Biochim Biophys Acta Gen Subj       Date:  2016-07-28       Impact factor: 3.770

8.  Quasielastic neutron scattering in biology: Theory and applications.

Authors:  Derya Vural; Xiaohu Hu; Benjamin Lindner; Nitin Jain; Yinglong Miao; Xiaolin Cheng; Zhuo Liu; Liang Hong; Jeremy C Smith
Journal:  Biochim Biophys Acta Gen Subj       Date:  2016-06-15       Impact factor: 3.770

9.  Neutron and light-scattering studies of DNA gyrase and its complex with DNA.

Authors:  S Krueger; G Zaccai; A Wlodawer; J Langowski; M O'Dea; A Maxwell; M Gellert
Journal:  J Mol Biol       Date:  1990-01-05       Impact factor: 5.469

10.  Effect of Phosphorylation on a Human-like Osteopontin Peptide.

Authors:  Samuel Lenton; Marco Grimaldo; Felix Roosen-Runge; Frank Schreiber; Tommy Nylander; Roger Clegg; Carl Holt; Michael Härtlein; Victoria García Sakai; Tilo Seydel; Susana C Marujo Teixeira
Journal:  Biophys J       Date:  2017-04-25       Impact factor: 4.033

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