Fitting Side-Chain NMR Relaxation Data Using Molecular Simulations

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Proteins display a wealth of dynamical motions that can be probed using both experiments and simulations. We present an approach to integrate side-chain NMR relaxation measurements with molecular dynamics simulations to study the structure and dynamics of these motions. The approach, which we term ABSURDer (average block selection using relaxation data with entropy restraints), can be used to find a set of trajectories that are in agreement with relaxation measurements. We apply the method to deuterium relaxation measurements in T4 lysozyme and show how it can be used to integrate the accuracy of the NMR measurements with the molecular models of protein dynamics afforded by the simulations. We show how fitting of dynamic quantities leads to improved agreement with static properties and highlight areas needed for further improvements of the approach.

Original languageEnglish
JournalJournal of Chemical Theory and Computation
Volume17
Issue number8
Pages (from-to)5262-5275
Number of pages14
ISSN1549-9618
DOIs
Publication statusPublished - 2021

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© 2021 American Chemical Society.

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