Protein Dynamics (e-book) (used book) | bookbook.eu

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Part I: Experimental Methods for Characterizing Protein Dynamics

1. Monitoring Side-Chain Dynamics of Proteins Using ²H Relaxation

Chad M. Petit and Andrew L. Lee

Rieko Ishima

4. Protein Structural Dynamics Revealed by Site-directed Spin Labeling and Multifrequency EPR

Yuri E. Nesmelov

5. Probing Backbone Dynamics With Hydrogen/Deuterium Exchange Mass Spectrometry

Harsimran Singh and Laura S. Busenlehner

6. Carbon-Deuterium Bonds as Non-perturbative Infrared Probes of Protein Dynamics, Electrostatics, Heterogeneity, and Folding

Jörg Zimmermann and Floyd E. Romesberg

Part II: Computational Methods for Characterizing Protein Dynamics

7. Balancing Bond, Nonbond and Gō-like Terms in Coarse Grain Simulations of Conformational Dynamics

Ronald D. Hills Jr.

8. Tutorial on Building Markov State Models with MSMBuilder and Coarse-graining them with BACE

Gregory R. Bowman

9. Analysis of Protein Conformational Transitions Using Elastic Network Model

Wenjun Zheng and Mustafa Tekpinar

10. Geometric Simulation of Flexible Motion in Proteins

Stephen A. Wells

11. Principal Component Analysis: A Method for Determining the Essential Dynamics of Proteins

Charles C. David and Donald J. Jacobs

12. A Case Study Comparing Quantitative Stability/Flexibility Relationships Across Five Metallo-β-Lactamases Highlighting Differences within NDM-1

Matthew C. Brown, Deeptak Verma, Christian Russell, Donald J. Jacobs, and Dennis R. Livesay

13. Towards Comprehensive Analysis of Protein Family Quantitative Stability/Flexibility Relationships using Homology Models

Deeptak Verma, Jun-tao Guo, Donald J. Jacobs^, and Dennis R. Livesay

14. Using the COREX/BEST Server to Model the Native State Ensemble

Vincent J. Hilser and Steven T. Whitten

15. Morphing Methods to Visualize Coarse-grained Protein Dynamics