Bis-PEG3-PFP ester
CAS No.: 1314378-13-6
Cat No.: BP-501039
4.5 
Bis-PEG3-PFP ester is a bifunctional polyethylene glycol linker featuring two PEG3 arms terminated with pentafluorophenyl (PFP) ester groups. Structurally, it provides a flexible, hydrophilic spacer that can be used to conjugate two biomolecular or small-molecule partners through PFP ester chemistry, which is well established for nucleophilic acyl substitution by primary amines and other suitable nucleophiles. In PROTAC design, this linker enables controlled installation of reactive handles on ligands (e.g., E3 ligase binders or target-binding warheads) and supports formation of a single, defined conjugate by connecting the two components with appropriate spatial separation. Its PEG-based flexibility can improve solubility and reduce nonproductive aggregation, while the dual electrophilic termini facilitate efficient coupling strategies. As a result, Bis-PEG3-PFP ester is valuable for assembling targeted protein degradation constructs and for optimizing linker length and attachment geometry during iterative PROTAC development.
Structure of 1314378-13-6
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Bis-PEG3-PFP ester is a polyethylene glycol (PEG)-based bifunctional linker designed for building PROTACs that require controlled spacing and improved solubility. Its two activated ester termini enable efficient conjugation to suitable nucleophiles, supporting modular assembly of targeted protein degraders. The flexible PEG segments can help tune linker length and conformational behavior, while the activated PFP ester functionality is well suited for reliable coupling workflows. Detailed structural and reactivity considerations are provided below.
Structure: This linker contains a PEG-derived, flexible backbone terminated by two pentafluorophenyl ester (PFP ester) groups. The PFP esters are aryl-activated carbonyls, enabling nucleophilic acyl substitution. Overall, the PEG segments impart hydrophilicity and conformational flexibility, with ester linkages serving as reactive handles for PROTAC synthesis.
Reactivity: Bis-PEG3-PFP ester is used in acyl substitution reactions where nucleophiles such as amines or other suitable alcohol/amine-containing coupling partners attack the activated ester carbonyl. Under mild, anhydrous to moderately dry conditions, bases commonly facilitate deprotonation of the nucleophile. Typical solvents include polar aprotic media compatible with activated esters. The pentafluorophenyl leaving group promotes efficient coupling, enabling stepwise PROTAC assembly by sequential or orthogonal conjugation 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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