Multiple Sequence Alignment
Desmond G, Higgens and William R. Taylor

Protein Structure Comparison Using SAP
William R. Taylor

Discovering Patterns Conserved in Sets of Unaligned Protein Sequences
Inge Jonassen

Identification of Domains from Protein Sequences
Chris P. Ponting and Ewan Birney

Third Generation Prediction of Secondary Structure
Burkhard Rost and Chris Sander

Comparative Protein Structure Modeling: Introduction and Practical Examples with Modeller
Roberto Sánchez and Andrej Sali

A Practical Guide to Protein Structure Prediction
David T. Jones

Derivation and Testing Residue-Residue Mean-Force Potentials for Use in Protein Structure Prediction
Boris A. Reva, Alexei V. Finkelstein, and Jeffery Skolnick

Genetic Algorithms and Protein Folding
Steffen Schulze-Kremer

Scoring Functions for ab initio Protein Structure Prediction
Enoch S. Huang, Ram Samudrala, and Brit H. Park

Ab Initio Loop Modeling and Its Application to Homology Modeling
Robert E. Bruccoleri

The Dead-End Elimination Theorem: Mathematical Aspects, Implementation, Optimizations, Evaluation, and Performance, Marc De Maeyer, Johan Desmet, and Ignace Lasters

Classification of Protein Folds
Robert B. Russell

Modeling Transmembrane Helix Bundles by Restrained MD Simulations
Mark S. P. Sansom and Leo Davison

Predictive Models of Protein-Active Sites
D. Eric Walters

Flexible Docking of Peptide Ligands to Proteins
Johan Desmet, Marc De Maeyer, and Ignace Lasters

Geometrical Docking Algorithms: A Practical Approach
Haim J. Wolfson and Ruth Nussinov

Protein-Protein Docking: Generation and Filtering of Complexes
Michael J. E. Sternberg, Henry A. Gabb, Richard M. Jackson, and Gidon Moont

Index.