Fmoc-N-PEG36-acid
Cat No.: BP-501911
4.5 
Fmoc-N-PEG36-acid is an Fmoc-protected, carboxy-terminated polyethylene glycol linker designed for stepwise solid-phase or solution-phase synthesis of PROTACs and other targeted conjugates. Structurally, it comprises an extended PEG chain that provides a hydrophilic, conformationally flexible spacer between a protein-binding ligand (often installed via the Fmoc handle during coupling) and a terminal functional group for subsequent amide or ester bond formation. In PROTAC architectures, this type of PEG linker helps tune the effective distance and orientation between the two binding modules, reducing steric interference and improving productive engagement of the target protein and the E3 ligase recruiter. The long, water-compatible chain can also mitigate aggregation and enhance handling of bulky conjugates, supporting systematic structure–activity relationship studies. As a modular building block, it enables researchers to rationally vary linker length and attachment chemistry to optimize degradation efficiency and selectivity in targeted protein degradation experiments.
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* For research and manufacturing use only. Not for human or clinical use.
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Fmoc-N-PEG36-acid is a PEG-based PROTAC linker building block designed to introduce a flexible, hydrophilic spacer that can improve solubility and modulate the effective distance and orientation between a ligand and an E3-recruiting moiety. Its Fmoc-protected terminus supports controlled stepwise synthesis, while the terminal carboxylic acid enables reliable conjugation to targeting groups. The molecule is widely applicable in targeted protein degradation workflows, where linker properties critically influence ternary complex formation and degradation efficiency; detailed structural and synthetic considerations are provided below.
Structure: The linker comprises an Fmoc-protected aromatic carbamate at one end and a terminal carboxylic acid, connected through an extended polyethylene glycol chain. It contains aromatic rings, amide/carbamate linkages, ether oxygen atoms, and a flexible polyether backbone. These features confer strong hydrogen-bonding capacity and enhanced aqueous compatibility.
Reactivity: The carboxylic acid can be activated for amide bond formation with amine-bearing ligands using standard coupling chemistries such as carbodiimide-based systems with coupling additives. The Fmoc group is typically removed under base conditions compatible with peptide-like synthesis, enabling orthogonal functionalization. Solvent systems commonly use polar aprotic media for activation steps, while mild conditions are selected to preserve sensitive functional groups during 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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