| Docking glossary |
| • Receptor - The receiving molecule that primarily binds to a small-molecule or another protein or a nucleic acid |
| • Ligand - A molecule that forms the complementary partner in the docking process |
| • Pose - A conformation of the receptor and ligand molecules showing some intermolecular interactions (which may include hydrogen bonds as well as hydrophobic contacts |
| • Posing - The process of searching for a pose in which there are favorable interactions between the receptor and the ligand molecules. |
| • Scoring - The process of evaluating a particular pose using a number of descriptive features like number of intermolecular interactions including hydrogen bonds and hydrophobic contacts. (See scoring function). |
| • Ranking - The process of classifying which of the ligands bind favorably to a particular receptor, evaluating and analyzing the free-energy of binding |
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