Article ID: 28 - Last Modified: October 1, 2013
What is ensemble docking and how can I use it?
Glide docking uses a rigid receptor model in which ligands are allowed to move flexibly but the protein remains rigid (with the exception of user-specified hydroxyl torsions). Because different ligand chemotypes may induce different receptor conformations, potent ligands whose chemotype induces one receptor conformation may score poorly against another receptor conformation.
Ensemble docking mitigates this problem by allowing users to dock a single ligand library against multiple rigid receptor conformations. You can perform ensemble docking using the Virtual Screening Workflow, found in Maestro at Tasks → Docking → Virtual Screening Workflow or Applications → Glide → Virtual Screening Workflow (Workflows → Virtual Screening Workflow prior to the 2013-1 release).
Keywords: vsw, receptor conformations, many, more than one
#560: I want to perform ensemble docking of 50 substrates, using the conformations (about 500) of an apo protein generated...
#553: How do I use an ensemble of receptors derived from IFD for virtual ligand screening?
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