This course introduces in-silico strategies for the rational design of drug candidates. The course is aimed at PhD students interested in studying small-molecules targeting proteins, DNA or other types of receptors. Program: Introduction to the Drug Design process, Structures of proteins acting as small-molecule receptors, Retrieving 3D structure from PDB and AlphaFold and 3D visualization, Small molecule databases, Hints on Ligand-based Drug Design, The basis of Molecular Modelling: Force Fields, Structure-based Drug Design: Molecular Docking, Virtual Ligand Screening, Molecular Dynamics simulation methods, Optimization of the drug: Pharmacophore models, Chemical Library preparation based on pharmacophore, Optimization of hit compounds, Prediction of the main physico-chemical and ADME properties. During the course real-world case studies showcasing successful applications of structure-based drug design in the development of therapeutic agents will be presented.