Protein Self-Assembly: Methods and Protocols

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