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HADDOCK2.4 basic protein-protein docking tutorial. This tutorial consists of the following sections: Introduction. Setup. HADDOCK general concepts. Inspecting and preparing E2A for docking. Inspecting and preparing HPR for docking. Adding a phosphate group. Setting up the docking run.
HADDOCK (High Ambiguity Driven protein-protein DOCKing) is an information-driven flexible docking approach for the modeling of biomolecular complexes.
In this tutorial, we aim to introduce you to basic concepts of protein-DNA docking using HADDOCK2.4 webserver. For a complete protein-DNA docking using HADDOCK 2.4, including the generation of Ambiguous Interaction Restraints (AIRs) and starting structures, visit the advanced tutorial on protein-DNA docking.
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HADDOCK2.4 manual - the docking protocol – Bonvin Lab. The entire docking protocol in HADDOCK consists of five stages: Topologies and structures generation. Generation of all atoms topologies and coordinates for each molecule separately. Generation of coarse grained topologies and coordinates for each molecule separately.
