Applications
OpenEye’s downloadable on-premise (desktop and server) applications provide you the tools to help you design potent and selective bioactive molecules. Combining scientific innovations with the best software engineering principles, our on-premise applications are well known for both efficiency and robustness.
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2025.2 Applications and Toolkits.
NEW SCIENCE and IMPROVED USABILITY
- Shape TK and ROCS®: Expand shape-based discovery with new ROCS and Shape TK capabilities, including overlay with color-only queries and searching a database of grids.
- Saiph TK: Streamline data workflows with the new Saiph TK, enabling flexible extraction, transformation, and loading of common cheminformatics file formats into records, for seamless interaction with the Orion® Molecular Design Platform.
- OEChem TK and Spruce TK: Improve structural accuracy through enhanced CIF header handling in OEChem TK and Spruce TK, delivering more reliable residue-level features, even in cases when there are missing or manually altered data
- And much more.
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2025.1 Applications and Toolkits.
NEW SCIENCE and IMPROVED USABILITY
- FastROCS: Grid Query Support
FastROCS TK now supports grid-based shape queries, expanding the types of queries inputs to include active site negative images, composite queries combining grids and molecules, and queries derived from crystallographic density. - Bioisostere TK: Feature Extensions
All capabilities previously available in the BROOD application are now integrated into Bioisostere TK. Users can design more selective and synthetically accessible bioisosteres by incorporating both on-target and off-target (selectivity) proteins into their queries, enabling more informed replacement suggestions. The toolkit also supports fragment bridging for macrocyclization and performs availability checks against commercial and internal databases, saving time and resources. - SZYBKI: Robust Protein–Ligand Optimization
SZYBKI and Szybki TK now provide more robust protein–ligand optimization, significantly lowering minimization failure rates. Streamlined ligand charge assignment and integration with OEDocking and/or POSIT allow users to optimize more structures with greater efficiency. - And much more.
- FastROCS: Grid Query Support
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Applications
pKa and tautomer enumeration for correct protonation states.
Compare electrostatic potential maps of pre-aligned molecules.
Remove undesirable compounds using physical property calculations and functional group knowledge.
Biomodeling preparation tool for protein and/or nucleic acid structures.
Molecular docking tools and workflows, each tailored to tackle specific aspects of protein-ligand interactions.
Understand the role of water in molecular interactions such as ligand binding.
Optimize molecular structures with a force field to model 3D molecular structures.
Access a comprehensive experimental pKa measurements.
Compare electrostatic potential maps of pre-aligned molecules.
Biomodeling preparation tool for protein and/or nucleic acid structures.
Understand the role of water in molecular interactions such as ligand binding.
Access a comprehensive experimental pKa measurements.
pKa and tautomer enumeration for correct protonation states.
Remove undesirable compounds using physical property calculations and functional group knowledge.
Molecular docking tools and workflows, each tailored to tackle specific aspects of protein-ligand interactions.
Optimize molecular structures with a force field to model 3D molecular structures.

Delivered the Way You Need.
Webinar: OpenEye's Free energy prediction for drug discovery: Ideas at breakfast, discoveries by lunch
Science Brief: Binding Free Energy Redefined: Accurate, Fast, Affordable
CUP XXV - Santa Fe March 10-12, 2026
Webinar: Novel Hits from Beyond the Known: ROCS X
Resources
Glimpse the Future through News, Events, Webinars and more
News
ROCS X: AI-Enabled Molecular Search Unlocks Trillions
Webinar
Webinar: OpenEye's Free energy prediction for drug discovery: Ideas at breakfast, discoveries by lunch