Propargyl-PEG4-S-PEG4-Boc is a heterobifunctional PEG linker featuring a terminal propargyl group at one terminus and a Boc-protected carboxylate at the other, connected through an extended, thioether-containing PEG backbone. The propargyl group provides a terminal alkyne that serves as a bioorthogonal handle for copper-catalyzed azide-alkyne cycloaddition, enabling selective conjugation to azide-functionalized target protein ligands or E3 ubiquitin ligase-recruiting moieties. The incorporated thioether linkage introduces a sulfur atom into the PEG backbone, which can modulate the conformational properties, lipophilicity, and metabolic stability of the linker relative to all-oxygen PEG analogs. Thioether-containing linkers have garnered interest in PROTAC design as the sulfur atom may engage in favorable hydrophobic interactions with protein surfaces, potentially contributing to stabilizing contacts within the ternary complex. The Boc-protected carboxylate, upon deprotection, provides a free carboxylic acid for amide coupling. The extended chain length offers substantial conformational flexibility and enhanced aqueous solubility, accommodating the intermolecular distances required for productive ternary complex formation. Researchers utilize this linker to investigate how thioether incorporation and extended PEG chain lengths collectively influence degradation efficiency and selectivity in targeted protein degradation research.
Structure of 2055041-18-2
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This extended heterobifunctional linker couples a terminal alkyne and protected carboxyl group through ether-rich segments containing a central thioether. It enables click-first or amidation-first PROTAC assembly and offers substantial conformational reach. Its structural and reactive properties are detailed below.
Structure: Oligoether segments flank a central thioether and terminate in a propargyl ether and tert-butyl propanoate. The molecule contains a terminal alkyne, numerous ether bonds, a sulfur-containing single bond, and an ester carbonyl, creating a flexible and polarizable linear spacer.
Reactivity: The alkyne undergoes cuprous-catalyzed cycloaddition with an azide in a compatible polar solvent using a stabilizing ligand and reductant. Because sulfur can coordinate metals and undergo oxidation, catalyst loading and oxidative exposure should be controlled. Acidic ester cleavage then provides a carboxylic acid for activated amide coupling with an amine-bearing ligand under standard anhydrous, mildly basic conditions.
* 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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