Cy5-PEG6-acid
Cat No.: BP-501822
Purity: 96%
4.5 
Cy5-PEG6-acid is a fluorescently labeled, carboxy-terminated polyethylene glycol (PEG) linker built from a hexaethylene glycol chain that provides a flexible, water-soluble spacer between a Cy5 dye and a reactive terminal group. Structurally, it combines the near-infrared Cy5 chromophore for optical tracking with a terminal carboxylic acid that enables site-specific conjugation to PROTAC components or other targeting ligands via standard coupling chemistries (e.g., amide or ester formation). In PROTAC design, such PEG-based linkers help control effective distance and relative orientation between the two binding modules, while the Cy5 tag allows researchers to monitor conjugate formation, cellular uptake, and subcellular localization without substantially perturbing overall solubility. This product is valuable for targeted protein degradation studies that require both efficient chemical linkage and real-time fluorescence readouts for optimizing linker length, stability, and degradation workflows.
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* For research and manufacturing use only. Not for human or clinical use.
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Cy5-PEG6-acid is a PEG-based linker bearing a carboxylic acid handle and a Cy5 fluorophore, designed to support PROTAC assembly and to enable traceable chemistry for targeted protein degradation workflows. Its flexible poly(ethylene glycol) segment helps tune linker length and conformational freedom, while the acid functionality provides a robust chemical handle for conjugation to ligands. The following sections describe its structure and practical reactivity considerations for PROTAC construction.
Structure: The linker comprises a Cy5 chromophore connected through a polyethylene glycol chain to a terminal carboxylic acid. It contains aromatic and polymethoxy-like heteroatom-rich motifs typical of cyanine dyes, with ether linkages in the PEG segment. The molecule is polar, water-compatible, and capable of forming stable amide or ester derivatives.
Reactivity: The terminal carboxylic acid is suitable for standard PROTAC linker conjugation via amide-bond formation using carboxyl-activation chemistry. Typical approaches include coupling with amines under dehydrating conditions, often employing carbodiimide-type activators with additives to suppress side reactions. Mild polar solvents such as DMF or DMSO are commonly used, and the reaction generally proceeds through formation of an activated carboxyl intermediate followed by nucleophilic acyl substitution.
* 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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