3,6,9,12,15-Pentaoxaoctadec-17-yn-1-ol mesylate is a long-chain, poly(ethylene glycol)-like ether linker bearing a terminal propargyl/alkynyl handle and an alcohol that is converted to a mesylate leaving group. Structurally, it combines multiple ether oxygens that provide conformational flexibility and aqueous compatibility with a carbon–carbon triple bond suitable for orthogonal bioorthogonal conjugation strategies, while the mesylate enables efficient nucleophilic substitution to install the linker onto amine- or thiol-functionalized partners. In PROTAC design, this linker architecture is used to spatially tune the distance and orientation between the target-binding ligand and the E3-recruiting moiety, thereby improving productive ternary complex formation and degradation potency. The mesylate activation supports straightforward linker functionalization during synthesis, and the ether-rich chain can reduce aggregation and enhance solubility, facilitating reproducible assembly of targeted protein degradation constructs for mechanistic and optimization studies.
Structure of 1036204-62-2
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3,6,9,12,15-Pentaoxaoctadec-17-yn-1-ol mesylate, is designed to provide a chemically robust tether that can connect a warhead to an E3 ligase ligand through reliable ether-forming chemistry. Its propargyl alcohol-derived functionality supports incorporation into targeted degradation constructs, while the mesylate leaving group enables efficient nucleophilic substitution under standard organic synthesis conditions. The detailed structural and synthetic considerations are provided below to guide PROTAC assembly and optimization.
Structure: The linker contains a long polyether chain with multiple ether oxygen atoms, a terminal propargyl alcohol motif converted to a mesylate, and an internal alkyne. It features a sulfonate ester functional group as the key reactive handle, with ether-rich flexibility that can improve conformational adaptability in PROTAC scaffolds.
Reactivity: The mesylate group undergoes nucleophilic substitution with suitable nucleophiles (commonly oxygen or nitrogen nucleophiles) to form the desired ether or related linkage for PROTAC construction. Typical conditions use polar aprotic solvents, mild base to generate the nucleophile, and temperature control to preserve sensitive functional groups. The reaction proceeds via a leaving-group displacement mechanism, with no special catalysts required beyond standard organic bases, and is compatible with iterative linker installation strategies.
* 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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