N-(Azide-PEG3)-N'-(PEG4-acid)-Cy5 | CAS 2107273-42-5

Name: N-(Azide-PEG3)-N'-(PEG4-acid)-Cy5
Brand: BOC Sciences
Rating: 5 (1 reviews)

Catalog Number	A17-0147
Category	Cyanine5
Molecular Formula	C₄₄H₆₂ClN₅O₉
Molecular Weight	840.44

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Product Introduction

N-(Azide-PEG3)-N'-(PEG4-acid)-Cy5 is a polyethylene glycol (PEG)-based PROTAC linker. N-(Azide-PEG3)-N'-(PEG4-acid)-Cy5 can be used in the synthesis of a series of PROTACs.

Chemical Information
Product Specification
Application

Chemical Information

Purity	96%
IUPAC Name	3-[2-[2-[2-[2-[2-[(1E,3E)-5-[1-[2-[2-[2-(2-azidoethoxy)ethoxy]ethoxy]ethyl]-3,3-dimethylindol-2-ylidene]penta-1,3-dienyl]-3,3-dimethylindol-1-ium-1-yl]ethoxy]ethoxy]ethoxy]ethoxy]propanoic acid;chloride
SMILES	CC1(C2=CC=CC=C2[N+](=C1C=CC=CC=C3C(C4=CC=CC=C4N3CCOCCOCCOCCN=[N+]=[N-])(C)C)CCOCCOCCOCCOCCC(=O)O)C.[Cl-]
InChI	InChI=1S/C44H61N5O9.ClH/c1-43(2)36-12-8-10-14-38(36)48(20-24-54-28-32-57-31-27-53-23-19-46-47-45)40(43)16-6-5-7-17-41-44(3,4)37-13-9-11-15-39(37)49(41)21-25-55-29-33-58-35-34-56-30-26-52-22-18-42(50)51;/h5-17H,18-35H2,1-4H3;1H
InChIKey	UKACGQMFZSBZHG-UHFFFAOYSA-N
Solubility	Water, DMSO, DMF, DCM

Product Specification

Excitation	649
Emission	667
Storage	Please store the product under the recommended conditions in the Certificate of Analysis.

Application

N-(Azide-PEG3)-N'-(PEG4-acid)-Cy5 is a Cy5-based fluorescent labeling building block bearing a terminal azide for click chemistry and a carboxylic acid for downstream conjugation or immobilization. The PEG spacers help maintain probe accessibility and reduce steric constraints during bioconjugation workflows, making it well suited for constructing fluorescent biomolecule conjugates, affinity reagents, and imaging standards that require a Cy5 emission readout.

1. Biomolecule Click Labeling

N-(Azide-PEG3)-N'-(PEG4-acid)-Cy5 is frequently used by chemical biology and glycobiology groups to introduce a Cy5 fluorophore onto biomolecules that contain a complementary clickable handle (e.g., strained alkyne or other cycloaddition partners). In labeling workflows, the azide functionality enables modular assembly of fluorescent conjugates for protein, peptide, or carbohydrate tagging, while the PEG3 linker supports efficient coupling without overly restricting the fluorophore environment. Researchers commonly employ the resulting Cy5 conjugates for fluorescence imaging of labeled targets and for fluorescence-based quantification in assay development.

2. Surface Immobilization Probes

N-(Azide-PEG3)-N'-(PEG4-acid)-Cy5 supports fluorescent surface engineering when the carboxylic acid is used as an anchoring or activation site for coupling to amine-bearing surfaces, polymer coatings, or biomaterial matrices. Materials and biosensor developers use this reagent to create Cy5-functionalized surfaces for studying binding interactions, monitoring surface coverage, and visualizing immobilized capture reagents under fluorescence microscopy. The combination of a terminal azide and a flexible PEG linker also supports post-immobilization click assembly, enabling staged construction of fluorescent interfaces for imaging and materials characterization.

3. Fluorescent Imaging Standards

N-(Azide-PEG3)-N'-(PEG4-acid)-Cy5 is often incorporated into imaging reagent development and method validation as a defined Cy5-containing fluorescent component. Because the molecule includes both a click-reactive azide and a functional acid handle, it can be used to prepare reference conjugates, calibration materials, or control constructs for microscopy and fluorescence-based workflows where consistent Cy5 signal is required. Lab teams use these standards to verify labeling consistency, compare conjugate batches, and support assay optimization when Cy5 readout is central to the experimental design.