Cyanine5.5 alkyne | CAS 1628790-37-3

Cyanine5.5 alkyne is a cyanine dye bearing a terminal alkyne handle for copper-free click conjugation workflows, enabling fluorescent labeling of biomolecules and materials with far-red emission. Researchers use this alkyne-functional fluorophore to build imaging reagents and conjugates where bright, long-wavelength fluorescence provides strong separation from common background channels. Its click-compatible functionality supports straightforward incorporation into probe constructs, polymer labels, and surface-modified platforms used in fluorescence microscopy and flow-based readouts.

1. Biomolecule Labeling

Cyanine5.5 alkyne is frequently used as a fluorescent labeling reagent for proteins, peptides, and other biomolecules in chemical biology workflows that require far-red detection. Teams performing conjugate preparation often attach the dye to azide-bearing biomolecules to generate stable fluorescent conjugates for binding studies, localization experiments, and multicolor imaging panels. The alkyne functionality makes it practical for assembling labeled affinity reagents and detection reagents used in microscopy-based assays and fluorescence readouts where channel separation is important.

2. Fluorescence Microscopy Imaging

Cyanine5.5 alkyne supports fluorescence microscopy experiments that benefit from far-red excitation and emission, including cellular imaging and labeled biomaterial visualization. Researchers use dye-conjugated targets to track distribution of tagged ligands, monitor labeled components within complex samples, and quantify fluorescence in imaging-based assays. In multichannel experiments, the dye's spectral placement helps reduce overlap with more common visible fluorophores, supporting clearer interpretation of spatial colocalization and trafficking studies.

3. Flow Cytometry Labeling

Cyanine5.5 alkyne is applied in flow cytometry workflows where far-red fluorescence is used to label cell-associated targets and enable gating with reduced spectral interference from standard fluorophores. Conjugates prepared from this alkyne dye are commonly used to quantify binding of labeled antibodies, ligands, or engineered probes on cell surfaces, as well as to track labeled populations in multiplex staining strategies. The dye's click-ready handle streamlines reagent assembly for consistent staining reagents used in instrument-based fluorescence analysis.

4. Fluorescent Probe Construction

Cyanine5.5 alkyne is widely used in fluorescent probe development for constructing labeled reporters, imaging tags, and assay-ready conjugates for research tool building. Teams designing molecular imaging reagents incorporate the dye into probe scaffolds through click-compatible coupling to azide-functional components, generating far-red fluorescent readouts for monitoring biomolecular interactions and labeled assay components. This approach is especially common when a modular labeling strategy is needed to rapidly swap targeting or recognition elements while keeping the fluorescent reporter constant.