The Protein Folding Problem and Tertiary Structure Prediction

Chapter 1 Modeling Side Chains in Peptides and Proteins with the Locally Enhanced Sampling/Simulated Annealing Method

Chapter 2 Conformation Searching Using Simulated Annealing

Chapter 3 Multiple-Start Monte Carlo Docking of Flexible Ligands

Chapter 4 The Genetic Algorithm and Protein Tertiary Structure Prediction

Chapter 5 Conformational Search and Protein Folding

Chapter 6 Building Protein Folds Using Distance Geometry: Towards a General Modeling and Prediction Method

Chapter 7 Molecular Dynamics Studies of Protein and Peptide Folding and Unfolding

Chapter 8 Contact Potential for Global Identification of Correct Protein Folding

Chapter 9 Neural Networks for Molecular Sequence Classification

Chapter 10 The “Dead-End Elimination” Theorem: A New Approach to the Side-Chain Packing Problem

Chapter 12 In Search of Protein Folds

Chapter 13 An Adaptive Branch-and-Bound Minimization Method Based on Dynamic Programming

Chapter 14 Computational Complexity, Protein Structure Prediction, and the Levinthal Paradox

Chapter 15 Toward Quantitative Protein Structure Prediction

Chapter 16 The Role of Interior Side-Chain Packing in Protein Folding and Stability