In Protein Dynamics: Methods and Protocols, expert researchers in the field detail both experimental and computational methods to interrogate molecular level fluctuations. Chapters detail best-practice recipes covering both experimental and computational techniques, reflecting modern protein research. Written in the highly successfulMethods in Molecular Biology™ series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls.
Authoritative and practical, Protein Dynamics: Methods and Protocols describes the most common and powerful methods used to characterize protein dynamics.
Monitoring Side-Chain Dynamics of Proteins Using 2H Relaxation.- CPMG
Relaxation Dispersion.- Confocal Single-Molecule FRET for Protein
Conformational Dynamics.- Protein Structural Dynamics Revealed by
Site-directed Spin Labeling and Multifrequency EPR.- Probing Backbone
Dynamics With Hydrogen/Deuterium Exchange Mass Spectrometry.-
Carbon-Deuterium Bonds as Non-perturbative Infrared Probes of Protein
Dynamics, Electrostatics, Heterogeneity, and Folding.- Balancing Bond,
Nonbond and G-like Terms in Coarse Grain Simulations of Conformational
Dynamics.- Tutorial on Building Markov State Models with MSMBuilder and
Coarse-graining them with BACE.- Analysis of Protein Conformational
Transitions Using Elastic Network Model.- Geometric Simulation of Flexible
Motion in Proteins.- Principal Component Analysis: A Method for Determining
the Essential Dynamics of Proteins.- A Case Study Comparing Quantitative
Stability/Flexibility Relationships Across Five Metallo--Lactamases
Highlighting Differences within NDM-1.- Towards Comprehensive Analysis of
Protein Family Quantitative Stability/Flexibility Relationships using
Homology Models.- Using the COREX/BEST Server to Model the Native State
Ensemble.- Morphing Methods to Visualize Coarse-grained Protein Dynamics.
