Amino-PEG9-amido-C16-Boc
Cat No.: BP-501851
4.5 
Amino-PEG9-amido-C16-Boc is a protected, bifunctional PEG-based linker designed for PROTAC assembly, featuring a terminal amino group and an amide-linked long-chain hydrophobic segment (C16) separated by a PEG spacer of intermediate length, with a tert-butyl ester-protected carboxyl group to enable controlled coupling. The PEG region provides conformational flexibility and aqueous compatibility, helping the degrader construct maintain productive geometry between the ligand-binding moieties and the recruited E3 ligase or target-binding element. The C16 amide segment increases hydrophobic character and can promote stable intramolecular organization, which is often important for tuning effective proximity and reducing nonproductive interactions. In targeted protein degradation research, this linker is valuable for systematic optimization of linker length, polarity, and hydrophobicity to improve ternary complex formation and degradation potency. Its protected group strategy supports stepwise synthesis and purification, facilitating reproducible experimental workflows for PROTAC linker screening and structure–activity relationship studies.
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* For research and manufacturing use only. Not for human or clinical use.
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This PROTAC linker, Amino-PEG9-amido-C16-Boc, is designed to provide a flexible, hydrophilic spacer combined with a protected amine handle and an amide-forming segment for reliable conjugation to ligands. Its PEG-based architecture supports favorable linker solvation and conformational adaptability, while the Boc-protected functionality enables controlled stepwise assembly. The subsequent sections describe the structural features and practical coupling considerations for constructing targeted protein degraders using this linker.
Structure: The linker contains a polyethylene glycol segment that imparts hydrophilicity and conformational flexibility, connected through an amide linkage to a long aliphatic (C16) chain. A Boc-protected amino group provides a stable, masked nucleophile for later deprotection and coupling.
Reactivity: Assembly typically proceeds via Boc deprotection under standard acid conditions to reveal a primary amine, followed by amide bond formation using activated carboxylic acid derivatives (e.g., NHS esters or acid chlorides) under inert or mildly basic conditions. Solvents such as polar aprotic media are commonly used to maintain solubility and drive coupling. The mechanism relies on nucleophilic acyl substitution, with careful control of pH to minimize side reactions.
* 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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