Determining Protein Dynamics from 15N Relaxation Data by Using DYNAMICS

TitleDetermining Protein Dynamics from 15N Relaxation Data by Using DYNAMICS
Publication TypeBook Chapters
Year of Publication2012
AuthorsFushman D
EditorShekhtman A, Burz DS, Walker JM
Book TitleProtein NMR Techniques
Series TitleMethods in Molecular Biology
Pagination485 - 511
PublisherHumana Press
ISBN Number978-1-61779-480-3
KeywordsBiomedical and Life Sciences

Motions are essential for protein function, and knowledge of protein dynamics is a key to our understanding the mechanisms underlying protein folding and stability, ligand recognition, allostery, and catalysis. In the last two decades, NMR relaxation measurements have become a powerful tool for characterizing backbone and side chain dynamics in complex biological macromolecules such as proteins and nucleic acids. Accurate analysis of the experimental data in terms of motional parameters is an essential prerequisite for developing physical models of motions to paint an adequate picture of protein dynamics. Here, I describe in detail how to use the software package DYNAMICS that was developed for accurate characterization of the overall tumbling and local dynamics in a protein from nuclear spin-relaxation rates measured by NMR. Step-by-step instructions are provided and illustrated through an analysis of 15 N relaxation data for protein G.