N-(m-PEG4)-N'-(PEG2-NHS ester)-Cy5
CAS No.: 2107273-28-7
Cat No.: BP-501699
Purity: 97%
4.5 
N-(m-PEG4)-N'-(PEG2-NHS ester)-Cy5 is a heterobifunctional, PEGylated Cy5 fluorescent linker containing a methoxy-capped PEG4 segment on one side and a PEG2 NHS ester reactive group on the other. The PEG chains provide aqueous solubility and spatial flexibility, while the NHS ester enables efficient formation of stable amide bonds with primary amines present on lysine residues or engineered amine-bearing ligands. In PROTAC and targeted degradation workflows, this linker is valuable for conjugating fluorescent reporters to either the targeting ligand or the recruited-protein-binding module, allowing visualization of binding, cellular uptake, and degradation-associated trafficking without substantially perturbing the pharmacophore. Its defined chain lengths and flexible, hydrophilic spacer architecture help maintain productive geometry for ternary-complex formation and facilitate quantitative tracking in experimental assays. Overall, it supports rigorous structure–function studies and optimization of targeted protein degradation constructs.
Structure of 2107273-28-7
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This N-(m-PEG4)-N'-(PEG2-NHS ester)-Cy5 linker is a bifunctional, PEGylated fluorescent conjugation reagent designed for building PROTACs that require both linker flexibility and a reactive handle for stable amide formation. Its PEG segments provide solubility and conformational damping, while the Cy5 fluorophore enables visualization and analytical tracking of conjugate assembly and degradation workflows. The detailed structure and reactivity considerations are provided below.
Structure: The molecule combines a Cy5 chromophore with two polyethylene glycol chains and a terminal N-hydroxysuccinimide ester. It contains ether linkages within PEG, an NHS-activated carboxylate functionality, and a conjugated aromatic system that supports fluorescence.
Reactivity: The NHS ester is designed to react with primary amines to form amide bonds under mild, aqueous-compatible conditions. PROTAC assembly typically involves preparing the amine-bearing ligand or intermediate, then coupling it to the NHS-activated end while maintaining pH in the amine-reactive range. Common solvents include buffered aqueous media or mixed aqueous-organic systems, with no special catalysts required; unreacted NHS ester is quenched after completion.
* 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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