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Updated: Jul 18, 2026

Pharmacophore Modeling for Targets with Extensive Ligand Libraries: A Case Study on SARS-CoV-2 Mpro
Published on: September 26, 2025
PHASE: a new engine for pharmacophore perception, 3D QSAR model development, and 3D database screening: 1.
Steven L Dixon1, Alexander M Smondyrev, Eric H Knoll
1Schrödinger, Inc., 120 W. 45th St., 29th Floor, New York, NY 10036, USA. dixon@schrodinger.com
Abstract:
We introduce PHASE, a highly flexible system for common pharmacophore identification and assessment, 3D QSAR model development, and 3D database creation and searching. The primary workflows and tasks supported by PHASE are described, and details of the underlying scientific methodologies are provided. Using results from previously published investigations, PHASE is compared directly to other ligand-based software for its ability to identify target pharmacophores, rationalize structure-activity data, and predict activities of external compounds.
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