Protein Self-Assembly: Methods and Protocols

ISBN-13: 9781493996803 / Angielski / Miękka / 2020 / 266 str.

Jennifer J. McManus

Spis treści

Preface…

Table of Contents…

Contributing Authors…

Part I Measuring Protein-Protein Interactions and Protein Phase Diagrams

1. Measuring Non-Specific Protein-Protein Interactions by Dynamic Light Scattering

Daniel Corbett, Jordan W. Bye, and Robin Curtis

2. Light Scattering to Quantify Protein-Protein Interactions at High Protein Concentrations

Mahlet A. Woldeyes, Cesar Calero-Rubio, Eric M. Furst, and Christopher J. Roberts

3. Quantitative Evaluation of Protein Solubility in Aqueous Solutions by PEG-Induced Liquid-Liquid Phase Separation

Ying Wang and Ramil F. Latypov

4. Measuring Protein Solubility

Neer Asherie

Part II Measuring Protein Self-Association, Aggregation, and Crystallization

5. Integral caa3-Cytochrome c Oxidase from Thermus thermophiles: Purification and Crystallization

Orla Slattery, Sabri Cherrak, and Tewfik Soulimane

6. Aggregation Profiling of C9orf72 Dipeptide Repeat Proteins Transgenically Expressed in Drosophila melanogaster using an Analytical Ultracentrifuge Equipped with Fluorescence Detection

Bashkim Kokona, Nicole R. Cunningham, Jeanne M. Quinn, and Robert Fairman

7. Sample Preparation and Size Analysis of C9orf72 Dipeptide Repeat Proteins Expressed in Drosophila melanogaster using Semi-Denaturing Agarose Gel Electrophoresis

Nicole R. Cunningham, Bashkim Kokona, Jeanne M. Quinn, and Robert Fairman

8. The Use of High Performance Liquid Chromatography for the Characterization of the Unfolding and Aggregation of Dairy Proteins

Sophie Gaspard and André Brodkorb

9. Differential Scanning Calorimetry to Quantify Heat Induced Aggregation in Concentrated Protein Solution

Matthew R. Jacobs, Mark Grace, Alice Blumlein, and Jennifer J. McManus

10. Nanoparticle Tracking Analysis to Examine the Temperature-Induced Aggregation of Proteins

Svenja Sladek, Kate McComiskey, Anne Marie Healy, and Lidia Tajbar

11. Evaluation of Temporal Aggregation Processes using Spatial Intensity Distribution Analysis

Zahra Rattray, Egor Zindy, Kara M. Buzza, and Alain Pluen

12. Fluorescence Correlation Spectroscopy for Particle Sizing in Highly Concentrated Protein Solutions

Judith J. Mittag, Matthew R. Jacobs, and Jennifer J. McManus

13. Size Determination of Protein Oligomers/Aggregates Using Diffusion NMR Spectroscopy

Pancham S. Kandiyal, Ji Yoon Kim, Daniel L. Fortunati, and K.H. Mok

Part III Computational Approached to Measure Protein Self-Assembly

14. Patchy Particle models to Understand Protein Phase Behavior

Nicoletta Gnan, Francesco Sciortino, and Emanuela Zaccarelli

15. Obtaining Soft Matter Models of Proteins and their Phase Behavior

Irem Altan and Patrick Charbonneau

16. Binding Free Energies of Conformationally Disordered Peptides through Extensive Sampling and End-Point Methods

Matthew G. Nixon and Elisa Fadda

17. Atomistic Simulation Tools to Study Protein Self-Aggregation

Deniz Meneksedag-Erol and Sarah Rauscher

Blurb

This volume explores experimental and computational approaches to measuring the most widely studied protein assemblies, including condensed liquid phases, aggregates, and crystals. The chapters in this book are organized into three parts: Part One looks at the techniques used to measure protein-protein interactions and equilibrium protein phases in dilute and concentrated protein solutions; Part Two describes methods to measure kinetics of aggregation and to characterize the assembled state; and Part Three details several different computational approaches that are currently used to help researchers understand protein self-assembly. Written in the highly successful Methods 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 tips on troubleshooting and avoiding known pitfalls.

Thorough and cutting-edge, Protein Self-Assembly: Methods and Protocols is a valuable resource for researchers who are interested in learning more about this developing field.