I have recently read "Molecular Modeling: Basic Principles and Applications". It gives a very good introduction for Structural Bioinformatics and also some bits of information for Molecular Simulation. It is a small, light and clearly written book.
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The new chapter "Chemogenomic Approaches to Rational Drug Design" has been added to the third edition (I have actually read the second one).
Table of contents:
- Introduction.
- Small Molecules.
- A Case Study for Small Molecule Modeling: Dopamine D3 Receptor Antagonists.
- Introduction to Comparative Protein Modeling.
- Virtual Screening and Docking.
- Scope and Limits of Molecular Docking.
- Chemogenomic Approaches to Rational Drug Design.
- A Case Study for Protein Modeling: the Nuclear Hormone Receptor CAR as an example for Comparative Modeling and the Analysis of Protein-Ligand Complexes.
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