Visual LinkerLinker Types
Linkers connect warheads in PROTACs and payloads in ADCs. Choice of linker affects stability, cell penetration, and efficacy. Visual Linker supports property calculation and 3D visualization for common linker chemistries.
Flexible linkers
PEG, alkyl chains, and other flexible spacers increase conformational freedom. They can improve ternary complex formation in PROTACs but may reduce selectivity. Use Linker Properties to compare rotatable bonds (flexibility) and length.
Linker Properties (flexibility) →Rigid linkers
Aromatic or piperazine-based linkers reduce flexibility and can improve proteolytic stability and potency. Molecular weight and logP from Linker Properties help compare rigid vs flexible options.
Linker Properties →Cleavable linkers
Valine–citrulline, disulfide, and other cleavable linkers release payload in specific environments (e.g. lysosome, reducing). Cleavability is often described in literature; use Hydrophobicity Calculation and 3D Viewer to assess physicochemical fit.
Using Visual Linker
Enter linker SMILES in Linker Properties for length, flexibility (rotatable bonds), MW, logP, TPSA, and Lipinski. Browse Linker Library for common linkers and use Batch SMILES for multiple linkers. View linker 3D in Linker 3D Conformation, PROTAC Linker Fit, and ADC Linker Fit; export SDF, PDB, PNG, and PDF. See Export formats and Linker Library Export for workflow. Data sources: Data Sources (ChEMBL, PubChem, PROTAC-DB, PDB).