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The main topic of this 39th Mosbacher Colloquium is concerned with techniques of protein engineering, examples of application, and the analysis and determination of protein structure, their stability and flexibility. Physicochemical aspects of hydrophobic interactions, folding dynamics, energy and entropy changes during conformational changes of peptide or protein chains, and the molecular events during catalytic processes, as well as ligand binding of a given enzyme are comprehensively treated. Furthermore, the implications for designing new biologically active peptides and synthetic antibodies are discussed.