Azido-PEG6-t-butyl ester
CAS No.: 406213-76-1
Cat No.: BP-500430
Purity: >97%
4.5 
Azido-PEG6-t-butyl ester is a polyethylene glycol linker bearing a terminal azide group and a protected carboxyl functionality as a tert-butyl ester. Structurally, it provides a flexible, hydrophilic six-unit PEG spacer that can extend and spatially separate PROTAC-relevant binding motifs, while the azide enables efficient bioorthogonal conjugation via copper-free or copper-catalyzed azide–alkyne cycloaddition to attach to alkyne-bearing ligands, handles, or reporter tags. The tert-butyl ester serves as a stable, masked carboxyl group during synthesis and purification, allowing subsequent deprotection to generate a free carboxyl for amide coupling or other linkage strategies commonly used to connect E3 ligands and target-binding warheads. In targeted protein degradation research, such PEG-azide linkers help tune linker length, reduce steric interference, and improve conjugate solubility, thereby supporting systematic optimization of PROTAC architecture and degradation performance.
Structure of 406213-76-1
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Azido-PEG6-t-butyl ester is a PEG-based, azide-functional linker designed for modular assembly of PROTACs, enabling efficient conjugation between targeting ligands and E3 ligase recruiters. Its ether-rich polyethylene glycol segment supports favorable solubility and conformational flexibility, while the azide handle provides a widely used bioorthogonal attachment site. The protected carboxyl functionality supports controlled coupling strategies during synthesis. Detailed structural and reactivity considerations are provided below.
Structure: This linker contains an azide group for orthogonal conjugation, a polyethylene glycol chain that provides hydrophilicity and flexibility, and a tert-butyl ester protecting group that masks the carboxylic acid during earlier steps. Its connectivity features ether linkages along the PEG backbone and ester carbonyl functionality.
Reactivity: The azide moiety is typically engaged via azide–alkyne cycloaddition under copper catalysis or via copper-free methods using strained alkynes, enabling attachment to alkyne-bearing partners. The tert-butyl ester can be deprotected under acid-promoted conditions to reveal a carboxylic acid for subsequent amide or ester-forming couplings. Common coupling approaches use carbodiimide-type reagents with appropriate bases in polar organic solvents.
* 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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