Benzyloxy-C5-PEG1
CAS No.: 159028-70-3
Cat No.: BP-501485
4.5 
Benzyloxy-C5-PEG1 is a polyethylene glycol–based PROTAC linker building block featuring a benzyloxy-capped terminus and a short, defined PEG segment that provides a flexible, water-compatible spacer. Structurally, it contains an ether linkage at the benzyloxy end and a short C5 carbon spacer element that connects into a single PEG unit, yielding a compact yet conformationally mobile tether. In targeted protein degradation constructs, such PEG linkers are used to tune the relative positioning and effective reach of the two recognition modules (typically a ligand for the target protein and a ligand for an E3 ubiquitin ligase). By improving solubility and reducing steric clashes, the linker can enhance formation of the ternary complex and thereby support efficient ubiquitination and downstream degradation. This product is valuable for researchers optimizing linker length, polarity, and flexibility to balance potency, physicochemical properties, and degradation selectivity in PROTAC development.
Structure of 159028-70-3
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Benzyloxy-C5-PEG1 is a polyethylene glycol–based linker designed to support PROTAC assembly by providing a flexible, hydrophilic spacer between a ligand and an E3-recruiting module. Its ether-rich architecture can help tune solubility and conformational freedom, which are key determinants of productive ternary complex formation. The detailed structural and synthetic considerations for using this linker in targeted protein degradation workflows are provided below.
Structure: The linker contains an ether-linked polyethylene glycol segment terminated with a benzyloxy-protected functionality. Its backbone is dominated by C–O–C ether linkages, offering conformational flexibility and strong hydrogen-bond acceptor character. Overall, the molecule is expected to be polar and water-compatible, supporting solvation in PROTAC constructs.
Reactivity: Benzyloxy-terminated PEG linkers are commonly used in PROTAC synthesis via ether-compatible coupling strategies, followed by deprotection when a free alcohol or corresponding reactive handle is required for subsequent amide or ester formation. Deprotection is typically performed under conditions used for benzyl ether cleavage (e.g., hydrogenolysis or oxidative cleavage), using appropriate catalysts and solvents to preserve sensitive ligands. The linker functions as a spacer rather than a catalytic component, so reaction design focuses on chemoselective functional group compatibility.
* 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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