Peptide Self-Assembly

Part I: Fundamental Methods for Characterizing Peptide Self-Assembly


1. Methods for Structural Analysis of Aggregates Formed by Self-Assembling Peptides
V. Castelletto and I. W. Hamley
2. Solid state NMR Structural Characterization of Self-assembled Peptides With Selective 13C and 15N Isotopic Labels
Danting Huang, Benjamin C. Hudson, Yuan Gao, Evan K. Roberts, and Anant K. Paravastu
3. ATR-FTIR Analysis of Amyloid Proteins
Jean-Marie Ruysschaert and Vincent Raussens
4. Imaging Protein Fibers at the Nanoscale and In Situ
Angelo Bella, Michael Shaw, Emiliana De Santis, and Maxim G. Ryadnov
5. Replica Exchange Molecular Dynamics: A Practical Application Protocol with Solutions to Common Problems and a Peptide Aggregation and Self-Assembly Example
Ruxi Qi, Guanghong Wei, Buyong Ma and Ruth Nussinov
6. An Aggregate Weight-normalized thioflavin-T Measurement Scale For Characterizing Polymorphic Amyloids And Assembly Intermediates
Ronald Wetzel, Saketh Chemuru, Pinaki Misra, Ravi Kodali, Smita Mukherjee, and Karunakar Kar
7. Nanoparticle Tracking for Protein Aggregation Research
Xiaomeng Lu and Regina M. Murphy
8. Peptide Self-assembly Measured using Fluorescence Correlation Spectroscopy
Judith J. Mittag, Joachim O. Rädler, and Jennifer J. McManus
Part II: Methods for the Preparation of Functional Self-Assembled Peptide Biomaterials
9. A General Method to Prepare Peptide-based Supramolecular Hydrogels
Dan Yuan, Junfeng Shi, Ning Zhou, and Bing Xu
10. Recursive Directional Ligation Approach for Cloning Recombinant Spider Silks
Nina Dinjaski, Wenwen Huang, and David L. Kaplan
11. Synthesis of Mikto-Arm Star Peptide Conjugates
Jin Mo Koo, Hao Su, Yi-An Lin, and Honggang Cui
12. Synthesis and Evaluation of Self—Assembled Nanostructures of Peptide—π chromophore conjugates
Tejaswini S. Kale and John D. Tovar
13. Programmable Fabrication of Multi-layer Collagen Nanosheets of Defined Composition
Tao Jiang and Vincent P. Conticello
14. Practical Considerations in the Design and use of Immunologically Active Fibrillar Peptide Assemblies
Carolina Mora Solano, Yi Wen, Huifang Han, and Joel H. Collier
15. Microwave-assisted Synthesis and Immunological Evaluation of Self-Assembling Peptide Vaccines
C. Brent Chesson, Rojelio Elias Alverado, and Jai S. Rudra
16. Preparation and Screening of Catalytic Amyloid Assemblies
Zsofia Lengyel, Caroline M. Rufo, and Ivan V. Korendovych
17. Self-assembly of Filamentous Cell Penetrating Peptides for Gene Delivery
Dawei Xu, Louis DeRidder, Brendan Elmore, and He Dong
18. Biogelx: Cell Culture on Gels based on Aromatic Peptide Amphiphiles
Mhairi M. Harper, Michael L. Connolly, Laura Goldie, Eleanore J. Irvine, Joshua E. Shaw, Vineetha Jayawarna, Stephen M. Richardson, Matthew J. Dalby, David Lightbody, and Rein V. Ulijn
Part III: Methods Related to Preparing, Characterizing and Inhibiting Pathological Amyloid Peptide Self-Assembly


19. Production and use of Recombinant Aβ for Aggregation Studies
Tiernan T. O’Malley, Sara Linse, and Dominic M. Walsh
20. Disaggregation of Ab42 for Structural and Biochemical Studies
Hyewon Chung, Elliot Crooks, Martine Ziliox, and Steven O. Smith
21. Preparation of Stable Amyloid-β Oligomers Without Perturbative Methods
Samuel A. Kotler and Ayyalusamy Ramamoorthy
22. Discriminating Strains of Self-Propagating Protein Aggregates Using a Conformational Stability Assay
Heather H.C. Lau, Angus Lau, and Joel C. Watts
23. Model Phospholipid Liposomes to Study the b-Amyloid-Peptide-Induced Membrane Disruption
Wei Qiang and Katelynne E. Doherty
24. Using Molecular Tweezers to Remodel Abnormal Protein Self-assembly and Inhibit the Toxicity of Amyloidogenic Proteins
Ravinder Malik, Jing Di, Gayatri Nair, Aida Attar, Karen Taylor, Edmond Teng, Frank-Gerrit Klärner, Thomas Schrader, and Gal Bitan
25. Incorporation of an azobenzene b-turn Peptidomimetic into Amyloid-b to Probe Potential Structural Motifs Leading to b-sheet self-assembly
Todd M. Doran and Bradley L. Nilsson
26. Solid State NMR Studies of Amyloid Materials: A Protocol to Define an Atomic Model of Aβ(1–42) in Amyloid Fibrils
Yiling Xiao, Dan McElheny, Minako Hoshi, and Yoshitaka Ishii
27. Experimental and Computational Protocols for Studies of Cross-seeding Amyloid Assemblies
Baiping Ren, Rundong Hu, Mingzhen Zhang, Yonglan Liu, Lijian Xu, Binbo Jiang, Jie Ma, Buyong Ma, Ruth Nussinov, and Jie Zheng