Protein-protein Complexes: Analysis, Modeling and Drug DesignGiven the immense progress achieved in elucidating protein-protein complex structures and in the field of protein interaction modeling, there is great demand for a book that gives interested researchers/students a comprehensive overview of the field. This book does just that. It focuses on what can be learned about protein-protein interactions from the analysis of protein-protein complex structures and interfaces. What are the driving forces for protein-protein association? How can we extract the mechanism of specific recognition from studying protein-protein interfaces? How can this knowledge be used to predict and design protein-protein interactions (interaction regions and complex structures)? What methods are currently employed to design protein-protein interactions, and how can we influence protein-protein interactions by mutagenesis and small-molecule drugs or peptide mimetics?The book consists of about 15 review chapters, written by experts, on the characterization of protein-protein interfaces, structure determination of protein complexes (by NMR and X-ray), theory of protein-protein binding, dynamics of protein interfaces, bioinformatics methods to predict interaction regions, and prediction of protein-protein complex structures (docking and homology modeling of complexes, etc.) and design of protein-protein interactions. It serves as a bridge between studying/analyzing protein-protein complex structures (interfaces), predicting interactions, and influencing/designing interactions. |
Contents
1 Xray Study of ProteinProtein Complexes and Analysis of Interfaces Joel Janin | 1 |
2 A Structural Perspective on ProteinProtein Interactions in Macromolecular Assemblies Ranjit P Bahadur | 25 |
3 Energetics of ProteinProtein Interactions Ilian Jelesarov | 46 |
Theory and Experiment Georgi V Pachov Razif R Gabdoulline and Rebecca C Wade | 89 |
5 Evolutionary Trace of Protein Functional Determinants Olivier Lichtarge | 119 |
6 ProteinProtein Docking Adrien Saladin and Chantal Prevost | 147 |
Using External Information to Spark the Biomolecular Rendezvous Adrien SJ Melquiond and Alexandre MJJ Bonvin | 182 |
8 Highresolution ProteinProtein Docking Nir London and Ora SchuelerFurman | 209 |
9 Scoring and Refinement of Predicted ProteinProtein Complexes Martin Zacharias | 236 |
10 Motifmediated Protein Interactions and their Role in Disease Holger Dinkel and Heinrich Sticht | 272 |
11 Prediction and Calculation of ProteinProtein Binding Affinities and Mutation Effects Sébastien Fiorucci Serge Antonczak and Jérôme Golebiowski | 295 |
12 Smallmolecule Inhibitors of ProteinProtein Interactions Thorsten Berg | 318 |
The Role of Molecular Simulations Giulia Morra Alessandro Genoni and Giorgio Colombo | 340 |
| 387 | |
Other editions - View all
Common terms and phrases
Acad Sci USA activity algorithm allosteric amino acid analysis apoptosis approaches assemblies association atoms Bahadur binding affinity Bioinformatics biological biomolecular Biophys calculated Cancer CAPRI capsid cell Chem chemical cluster computational conformational changes correlation crystal Curr Opin Struct docking methods electrostatic ensemble entropy example experimental flexibility force field Genomics geometry high-resolution homodimers hydrogen bonds hydrophobic identify inhibition inhibitors interface Janin kinase ligand linear motifs macromolecular MD simulations Mol Biol molecular dynamics molecules mutations Natl Acad Sci Nucleic Acids Nucleic Acids Res Nussinov Opin Struct Biol peptide pharmacophore prediction Proc Natl Acad protein complexes Protein Sci protein structures protein-protein complexes protein-protein docking protein–protein interactions Proteins 69 protocol receptor refinement residues RosettaDock sampling scoring function sequence SH2 domain Shepherdin side chain signalling solutions solvation solvent specific statistical potentials strategies Structural Genomics studies subunits surface target techniques temperature thermodynamic Wang Wolfson H.J. XIAP