Propargyl-PEG3-t-butyl ester
CAS No.: 1374658-84-0
Cat No.: BP-500460
Purity: >95%
4.5 
Propargyl-PEG3-t-butyl ester is a heterobifunctional PEG-based linker featuring a terminal propargyl (alkyne) handle and a protected carboxylate masked as a tert-butyl ester. Structurally, it provides a short, flexible polyethylene glycol chain that increases solubility and spatial reach while maintaining chemical compatibility with common PROTAC assembly strategies. In targeted protein degradation workflows, the propargyl group enables chemoselective conjugation via click-type reactions to install the linker onto an E3 ligase ligand or a warhead-bearing scaffold, whereas the tert-butyl ester can be used to control reactivity during synthesis and then be converted to the free carboxylate for subsequent coupling steps. This combination of orthogonal functional groups and PEG-mediated flexibility makes the reagent valuable for constructing PROTACs with improved aqueous handling and tunable linker length, facilitating systematic structure–activity studies of ternary complex formation and degradation efficiency.
Structure of 1374658-84-0
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Propargyl-PEG3-t-butyl ester is a PEG-based PROTAC linker building block designed to provide controlled spatial separation and solubility while retaining a functional handle for site-specific conjugation. The propargyl group enables reliable click-compatible coupling, and the t-butyl ester provides a chemically addressable protection motif that can be unmasked under appropriate conditions to reveal reactive carboxyl functionality. These features make the linker well suited for assembling targeted protein degraders, where linker geometry and reactivity strongly influence productive ternary complex formation. Detailed structural and reactivity considerations are provided below.
Structure: The linker comprises a propargyl terminus attached to a polyethylene glycol segment and a terminal t-butyl ester. It contains an alkyne for bioorthogonal coupling, ether linkages within the PEG chain, and an ester linkage protected as a tert-butyl group, contributing to polarity and conformational flexibility.
Reactivity: The propargyl functionality is compatible with copper-catalyzed azide–alkyne cycloaddition or related alkyne-based coupling strategies commonly used in PROTAC synthesis. The t-butyl ester can be selectively cleaved to generate a carboxyl group for subsequent amide or ester bond formation. Typical preparation workflows use standard ester deprotection conditions and then proceed with coupling reactions under amide-forming conditions using appropriate bases and coupling reagents in compatible organic solvents, while minimizing alkyne degradation.
* 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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