N-(m-PEG4)-N'-(biotin-PEG3)-Cy5
CAS No.: 2107273-68-5
Cat No.: BP-500633
Purity: 98%
4.5 
N-(m-PEG4)-N'-(biotin-PEG3)-Cy5 is a heterobifunctional PEG-based linker that combines a Cy5 fluorophore with a biotin handle, separated by defined polyethylene glycol spacer segments. Structurally, it contains an m-PEG4 segment on one terminus and a biotin-PEG3 segment on the other, providing flexible, hydrophilic spacing that reduces steric interference and helps preserve the accessibility of both the dye and the biotin moiety. In PROTAC and targeted degradation workflows, such linkers are valuable for constructing traceable conjugates: the Cy5 label enables fluorescence-based monitoring of synthesis efficiency, cellular uptake, and intracellular localization, while the biotin group can be used to attach or capture the PROTAC-related component via streptavidin/biotin affinity systems for controlled assembly, enrichment, or pull-down assays. This dual-function design supports rigorous experimental characterization of linker–ligand conjugates and facilitates quantitative studies of degrader trafficking and engagement.
Structure of 2107273-68-5
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This PROTAC linker is designed to connect a targeting ligand to a degradation-recruiting module while incorporating PEG-based spacers that improve aqueous solubility, conformational flexibility, and effective presentation of functional groups. The biotin-PEG3 and Cy5-containing motifs enable versatile conjugation and tracking strategies commonly used in targeted protein degradation workflows. Detailed structural and synthetic considerations are provided below to support robust PROTAC assembly and characterization.
Structure: The linker is built from polyethylene glycol segments that create flexible, hydrophilic linkers, connected through stable amide linkages. It incorporates a biotin-PEG3 unit and a Cy5-bearing handle, yielding a conjugatable, water-compatible scaffold with reduced steric constraints and favorable solvation.
Reactivity: For PROTAC construction, this linker is typically used in coupling schemes that form or preserve amide bonds between a ligand-bearing functional group and the linker’s reactive termini. Suitable conditions generally involve mild base and activating reagents compatible with PEG and dye stability, using polar aprotic solvents and controlled temperatures to minimize hydrolysis and maintain Cy5 integrity.
* 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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