Chapter 1 The Framework of Computational Protein Design.

Chapter 2 Achievements and Challenges in Computational Protein Design.

Chapter 3 Production of Computationally Designed Small Soluble- and Membrane-Proteins: Cloning, Expression, and Purification.

Chapter 4 Deterministic Search Methods for Computational Protein Design.

Chapter 5 Geometric Potentials for Computational Protein Sequence Design.

Chapter 6 Modeling Binding Affinity of Pathological Mutations for Computational Protein Design.

Chapter 7 Multistate Computational Protein Design with Backbone Ensembles.

Chapter 8 Integration of Molecular Dynamics Based Predictions into the Optimization of De Novo Protein Designs: Limitations and Benefits.

Chapter 9 Applications of Normal Mode Analysis Methods in Computational Protein Design.

Chapter 10 Computational Protein Design Under a Given Backbone Structure with the ABACUS Statistical Energy Function.

Chapter 11 Computational Protein Design Through Grafting and Stabilization.

Chapter 12 An Evolution-Based Approach to De Novo Protein Design.

Chapter 13 Parallel Computational Protein Design.

Chapter 14 Computational Protein Design

Chapter 15 OSPREY Predicts Resistance Mutations Using Positive and Negative Computational Protein Design.

Chapter 16 Evolution-Inspired Computational Design of Symmetric Proteins.

Chapter 17 A Protocol for the Design of Protein and Peptide Nanostructure Self-Assemblies Exploiting Synthetic Amino Acids.

Chapter 18 Probing Oligomerized Conformations of Defensin in the Membrane.

Chapter 19 Computational Design of Ligand Binding Proteins.

Chapter 20 EpiSweep: Computationally Driven Reengineering of Therapeutic Proteins to Reduce Immunogenicity While Maintaining Function.

Chapter 21 Computational Tools for Aiding Rational Antibody Design.

Chapter 23 Computational Tools for Allosteric Drug Discovery: Site Identification and Focus Library Design.