BCN-PEG4-alkyne
Cat No.: BP-502089
4.5 
BCN-PEG4-alkyne is a bifunctional polyethylene glycol linker that combines a bicyclononyne (BCN) strained cyclooctyne handle with a terminal alkyne, providing a flexible PEG spacer of four repeat units for efficient conjugation in targeted protein degradation workflows. The BCN moiety enables rapid strain-promoted azide–alkyne cycloaddition (SPAAC) with azide-bearing partners without copper catalysis, which is advantageous for preserving sensitive biomolecules and minimizing cytotoxic metal exposure. The terminal alkyne facilitates orthogonal attachment to complementary alkyne-reactive or click-compatible components, allowing modular assembly of PROTACs or other heterobifunctional degraders. In PROTAC design, this linker supports controlled spatial separation between the ligand-binding region and the E3-recruiting or targeting module, helping tune effective ternary complex formation and degradation potency. Its PEG-based flexibility and bioorthogonal reactivity make it a valuable tool for constructing and optimizing targeted degradation probes under conditions compatible with biochemical and cell-based assays.
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* For research and manufacturing use only. Not for human or clinical use.
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BCN-PEG4-alkyne is a bifunctional PROTAC linker designed to connect a BCN (bicyclononyne) handle with an alkyne-bearing terminus through a polyethylene glycol spacer. This architecture enables efficient, modular assembly of targeted protein degradation constructs by pairing orthogonal bioorthogonal chemistry with flexible distance control. The linker’s subsequent use in PROTAC synthesis is described in detail below, including structural features and practical considerations for reaction setup.
Structure: The linker contains a BCN moiety for strained-alkyne cycloaddition and a terminal alkyne for complementary coupling, separated by a PEG chain that provides conformational flexibility. It features ether linkages within the PEG segment and carbon–carbon bonds formed during click-type conjugation, yielding a hydrophilic, water-compatible scaffold.
Reactivity: BCN groups react with terminal alkynes via strain-promoted cycloaddition under mild, catalyst-free conditions, typically in aqueous or mixed aqueous/organic media. For PROTAC construction, the alkyne handle can be used for subsequent conjugation steps, while the BCN functionality serves as the orthogonal coupling site. Reaction efficiency is influenced by pH, solvent composition, and steric accessibility of the alkyne partner; no additional metal catalyst is generally required for the BCN–alkyne step.
* 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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