February 18, 2016
||Le Méridien Cambridge-MIT|
20 Sidney Street, Cambridge, MA, 02139, United States
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Antibody Modeling and Protein Engineering in MOE
The course covers approaches for structure-based biologics design and includes protein-protein interactions analysis, in silico protein engineering, affinity modeling and antibody homology modeling. The interaction of a co-crystallized antibody-antigen complex will be evaluated by generating and examining the molecular surface topology and visualizing protein-protein interactions in 3D and 2D. The application of protein engineering tools for homology modeling and conducting property optimization of an antibody-antigen complex in the context developability will be studied.All the steps necessary for producing and assessing antibody homology models will be described. Methods for evaluating the structure of protein and antibody models will be discussed.
Biologics Modeling: Protein Alignments, Advanced Protein Modeling and Docking
The course covers methods for aligning protein sequences, super-positioning structures, homology modeling fusion proteins and conducting protein-protein docking. In particular, an approach for aligning and super-positioning multiple structures will be described for determining structural and surface protein variations in relation to protein property behavior. A method for grafting and refining antibody CDR loops as well as using a knowledge-based approach to scFv fusion protein modeling using the MOE linker application will be described. An approach to generate homology models of a murine antigen structure from a human template as well as protein-protein docking of an antibody to an antigen will be discussed.
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