endo-BCN-PEG4-PFP ester
Endo-BCN-PEG4-PFP ester is a BCN (bicyclononyne)–functionalized, four-unit polyethylene glycol (PEG) linker terminating in a PFP ester, providing a dual-reactive handle for PROTAC and targeted protein degradation workflows. The BCN moiety enables rapid, bioorthogonal strain-promoted alkyne–cyclooctyne cycloaddition with azide-bearing partners, allowing modular conjugation to ligands or scaffolds without copper catalysis. The PEG4 segment supplies aqueous solubility and conformational spacing, which can reduce steric interference between the recruiting ligand and the E3 ligase–binding module in multicomponent constructs. The PFP ester reacts with primary amines to form stable amide bonds, facilitating coupling to amine-containing proteins, peptides, or linker-bearing intermediates during construct assembly. This combination makes the reagent valuable for constructing degraders and related targeted degradation probes where orthogonal labeling, controlled geometry, and efficient attachment chemistry are critical for preserving binding and promoting productive ternary complex formation.
Structure of 1421932-52-6
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* For research and manufacturing use only. Not for human or clinical use.
| Size | Price | Stock | Quantity |
|---|---|---|---|
| 25 mg | $399 | In stock |
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This endo-BCN-PEG4-PFP ester linker is designed to enable efficient, modular assembly of PROTAC constructs by combining a BCN-type bioorthogonal handle with a PEG spacer and a pentafluorophenyl (PFP) ester for subsequent conjugation to amine-bearing ligands. Its PEG segment supports favorable solubility and linker flexibility, while the PFP ester offers strong acyl-transfer reactivity under mild aqueous-compatible conditions. Detailed structural and reactivity considerations for PROTAC synthesis are provided below.
Structure: The linker comprises a bicyclononyne (BCN) moiety connected through a polyethylene glycol (PEG) spacer to a pentafluorophenyl ester. It contains an activated carboxylate functionality, ether linkages within PEG, and aromatic fluorinated features, providing enhanced polarity and solubility suitable for conjugation workflows.
Reactivity: The PFP ester undergoes nucleophilic acyl substitution with primary amines to form stable amide bonds, typically in buffered aqueous or mixed solvent systems compatible with PROTAC ligand chemistry. The BCN handle supports strain-promoted azide–alkyne cycloaddition (SPAAC) with azide-functional partners without added catalysts. Practical execution generally relies on maintaining controlled pH, avoiding competing nucleophiles, and using standard coupling buffers for efficient PROTAC assembly.
* Our calculator is based on the following equation:
Concentration (start) x Volume (start) = Concentration (final) x Volume (final)
It is commonly abbreviated as: C1V1 = C2V2
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