Table of Contents

List of Contributors.

Preface.

1 The Basics of Protein Sequence Analysis (Katarzyna H. Kaminska, Kaja Milanowska and Janusz M. Bujnicki).

2 First Steps of Protein Structure Prediction (Karolina Majorek, Łukasz Kozłowski, Marcin Jąkalski and Janusz M. Bujnicki).

3 Automated Prediction of Protein Function from Sequence (Meghana Chitale, Troy Hawkins and Daisuke Kihara).

4 Template Based Prediction of Three-dimensional Protein Structures: Fold Recognition and Comparative Modeling (Jan Kosiński, Karolina L. Tkaczuk, Joanna M. Kasprzak and Janusz M. Bujnicki).

5 Template-free Predictions of Three-dimensional Protein Structures: From First Principles to Knowledge-based Potentials (Dominik Gront, Dorota Latek, Mateusz Kurcinski and Andrzej Kolinski).

6 Quality Assessment of Protein Models (Björn Wallner and Arne Elofsson).

7 Prediction of Molecular Interactions from 3D-structures: From Small Ligands to Large Protein Complexes (Kengo Kinoshita, Hidetoshi Kono and Kei Yura).

8 Structure-based Prediction of Enzymes and Their Active Sites (James W. Torrance and Janet M. Thornton).

9 The Prediction of Macromolecular Complexes by Docking (Sjoerd J. de Vries, Marc van Dijk and Alexandre M.J.J. Bonvin).

10 Protein Function Prediction via Analysis of Interactomes (Elena Nabieva and Mona Singh).

11 Integrating Prediction of Structure, Function, and Interactions (Michael Tress, Janusz M. Bujnicki, Gonzalo Lopez and Alfonso Valencia).

Index.

About the Author

Professor Bujnicki is head of the Laboratory of Bioinformatics and Protein Engineering at the International Institute of Molecular and Cell Biology, Warsaw, Poland. He is the editor of “Practical Bioinformatics" (Springer-Verlag, 2004).