N-(m-PEG4)-N'-(PEG2-acid)-Cy5
CAS No.: 2107273-24-3
Cat No.: BP-500478
Purity: 97%
4.5 
N-(m-PEG4)-N'-(PEG2-acid)-Cy5 is a PEGylated Cy5 fluorescent monoacid. Structurally, it contains a Cy5 cyanine core bearing one methoxy-PEG4 arm and one PEG2 arm terminated with a propionic acid, with chloride as the counterion. The carboxylic acid is the principal coupling handle and can be activated for amide formation with an amine-bearing ligand or linker, while the methoxy PEG arm remains capped and the dye–PEG attachments are not branched amide linkages. In PROTAC and related targeted protein degradation research, the reagent enables fluorescent labeling through a defined acid handle while retaining a hydrophilic mPEG substituent. Its defined architecture allows researchers to evaluate how linker polarity, flexibility, attachment sequence, and terminal-group selection influence conjugate preparation and the spatial requirements of productive target–E3 ligase engagement.
Structure of 2107273-24-3
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This PROTAC linker component, N-(m-PEG4)-N'-(PEG2-acid)-Cy5, integrates a Cy5 fluorophore with polyethylene glycol (PEG) spacers and a terminal carboxylic acid handle. Its flexible, hydrophilic PEG architecture supports solubility and productive ternary-complex formation in targeted protein degradation workflows, while the acid functionality enables controlled conjugation to ligands. The following sections describe its structure and practical reactivity considerations for PROTAC assembly.
Structure: The molecule contains a Cy5 chromophore connected through PEG-based linkers, featuring ether-rich poly(ethylene glycol) segments that provide conformational flexibility. A terminal carboxylic acid provides an anionic, hydrogen-bonding site. The overall structure is dominated by ether and amide/amine-derived connectivity, supporting aqueous compatibility.
Reactivity: The terminal carboxylic acid is suitable for standard PROTAC linker conjugation strategies that form amide or related acyl linkages with complementary amine-bearing ligands. Typical approaches use carbodiimide coupling in the presence of activating additives, often with base in polar aprotic solvents, to promote efficient acyl activation and amide bond formation. Reaction design should account for PEG-mediated solubility and minimize fluorophore exposure to harsh conditions.
* 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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