Methods in Enzymology, Volume 607: Phosphatases, the latest release in this ongoing series, highlights new advances in the field as detailed by an international board of authors. This latest release includes chapters on Empirical Valence Bond Simulations of the Evolution of Enzyme Function, QM/MM Free Energy and Kinetic Isotope Analysis of Phosphoryl Transfer in Enzymes, the Structural, Mechanism and Evolution of Phosphatases, How to Define Rapid Motions in Pumping Pyrophosphatases, The Evolution of K+-Independence in Pyrophosphatases, the Crystallization of Michaelis, Intermediate and Inhibited Complexes in Phosphatases, and an Investigation of Nucleotide Loading and Effector Binding of K-Ras.
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Table of Contents
1. Empirical Valence Bond Simulations of Organophosphate Hydrolysis: Theory and Practice Miha Purg and Shina Caroline Lynn Kamerlin 2. Analysis of Phosphoryl-Transfer Enzymes With QM/MM Free Energy Simulations Daniel Roston, Xiya Lu, Dong Fang, Darren Demapan and Qiang Cui 3. Defining Dynamics of Membrane-Bound Pyrophosphatases by Experimental and Computational Single-Molecule FRET Steven P.D. Harborne, Jannik Strauss, Ainoleena Turku, Matthew A. Watson, Roman Tuma, Sarah A. Harris and Adrian Goldman 4. A Simple Strategy to Determine the Dependence of Membrane-Bound Pyrophosphatases on K+ as a Cofactor Jannik Strauss, Craig Wilkinson, Keni Vidilaseris, Steven P.D. Harborne and Adrian Goldman 5. Crystallization of Liganded Phosphatases in the HAD Superfamily Christine Harvey, Katherine O'Toole and Karen N. Allen 6. Structure, Mechanism, and Substrate Profiles of the Trinuclear Metallophosphatases From the Amidohydrolase Superfamily Swapnil V. Ghodge and Frank M. Raushel 7. Affinities and Comparisons of Enzyme States by Principal Component Analysis of NMR Spectra, Automated Using TREND Software Jia Xu and Steven R. Van Doren 8. Assessment and Impacts of Phosphorylation on Protein Flexibility of the a-D-Phosphohexomutases Kyle M. Stiers and Lesa J. Beamer 9. Chemical Tools for Studying the Impact of cis/trans Prolyl Isomerization on Signaling: A Case Study on RNA Polymerase II Phosphatase Activity and Specificity Nathaniel Tate Burkholder, Brenda Medellin, Seema Irani, Wendy Matthews, Scott A. Showalter and Yan Jessie Zhang 10. Quantitative Analysis of Intracellular Response Regulator Phosphatase Activity of Histidine Kinases Rong Gao and Ann M. Stock 11. Measuring the Activities of Two-Component Regulatory System Phosphatases Robert B. Bourret and Ruth E. Silversmith 12. Assembly of PGAM5 Into Multimeric Complexes Provides a Mechanism for Allosteric Regulation of Phosphatase Activity Peter Tipton, Tong Su and Mark Hannink 13. Purification of Lipin and Measurement of Phosphatidic Acid Phosphatase Activity From Liposomes Mitchell E. Granade and Thurl E. Harris 14. Combining SAMDI Mass Spectrometry and Peptide Arrays to Profile Phosphatase Activities Lindsey C. Szymczak, Che-Fan Huang, Eric J. Berns and Milan Mrksich 15. Protein Chemical Approaches to Understanding PTEN Lipid Phosphatase Regulation Daniel R. Dempsey and Philip A. Cole
