N-(azide-PEG3)-N'-(m-PEG4)-Benzothiazole Cy5
CAS No.: 2107273-88-9
Cat No.: BP-501451
Purity: 98%
4.5 
N-(azide-PEG3)-N'-(m-PEG4)-Benzothiazole Cy5 is a bifunctional, PEGylated fluorescent linker that combines a Cy5 benzothiazole fluorophore with two polyethylene glycol chains of different lengths, including an azide-terminated PEG3 arm and a methoxy-terminated PEG4 arm. Structurally, it contains an azide handle for bioorthogonal conjugation and a methoxy-terminated PEG4 region that contributes hydrophilicity while reducing nonspecific interactions. In PROTAC design, such PEG–azide linkers are used to spatially separate functional domains, tune effective concentration at the target site, and provide a modular “click” point for conjugating ligands, handles, or imaging tags without perturbing the binding pharmacophores. Its Cy5 fluorophore supports real-time tracking of conjugation efficiency and cellular uptake, facilitating optimization of targeted degradation constructs. This makes the reagent valuable for mechanistic studies, linker screening, and quantitative imaging of PROTAC assembly and trafficking in experimental workflows.
Structure of 2107273-88-9
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This PROTAC linker is designed to connect targeting ligands and enable efficient formation of heterobifunctional degraders. Its PEG-based architecture provides solubility and conformational flexibility, while the azide handle supports modular conjugation strategies commonly used in PROTAC assembly. The benzothiazole-containing motif contributes a stable, aromatic scaffold suitable for linker integration. Detailed structural and reactivity considerations are provided below to support experimental planning.
Structure: The linker contains an azide-functionalized PEG segment and an additional PEG spacer attached to a benzothiazole-based aromatic core. It features ether-rich, flexible polyether chains, with cyanine nitrogen substitution connecting the functional fragments. Overall, it is expected to be hydrophilic and conformationally adaptable in aqueous media.
Reactivity: The azide group enables bioorthogonal azide–alkyne cycloaddition (CuAAC) or strain-promoted azide–alkyne cycloaddition (SPAAC) for attaching complementary alkyne-bearing partners. Suitable conditions typically include controlled aqueous or mixed solvent systems compatible with PEG solubility, with CuAAC requiring copper catalysis and appropriate ligand stabilization, while SPAAC proceeds without copper. Reaction design should consider maintaining linker integrity and minimizing side reactions during conjugation.
* 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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