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This document provides instructions for using the Glide program to dock ligands into the binding site of a protein receptor. It describes preparing the receptor protein HIV reverse transcriptase and the ligand nevirapine for docking. Key steps include using the Protein Preparation Wizard to add hydrogens and refine the protein structure, and using LigPrep to generate conformations of the ligand. A docking grid is generated for the receptor binding site using the prepared structures. Rigid docking of the ligand is then performed against this grid to position the ligand in the binding site.
This document provides instructions for using the Glide program to dock ligands into the binding site of a protein receptor. It describes preparing the receptor protein HIV reverse transcrip…