Cyanine 5, SE

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Description: Red fluorescent dye (Reactive group: NHS ester). Application: confocal microscopy, fluorescence microscopy, flow cytometry
Alternative Names: Cy5 NHS Ester
Chemical Name: 2-[5-[1-[6-[(2,5-Dioxo-1-pyrrolidinyl)oxy]-6-oxohexyl]-1,3-dihydro-3,3-dimethyl-5-sulfo-2H-indol-2-ylidene]-1,3-pentadien-1-yl]-1-ethyl-3,3-dimethyl-5-sulfo-3H-indolium, inner salt
Purity: ≥95% (HPLC)
Citations (1)
Protocols (1)
Literature (1)

Biological Activity for Cyanine 5, SE

Key information: Cyanine 5, SE is a widely used red fluorescent dye supplied with an NHS ester reactive group for the labeling of primary amines.

Application: Suitable for fluorescence microscopy, confocal microscopy and flow cytometry.

Properties and Photophysical Data: Excitation and emission maxima (λ) are 649 nm and 666 nm, respectively; quantum yield = 0.2; extinction coefficient = 250,000 M-1cm-1; A280 correction factor = 0.04.

For more information on how Cyanine 5, SE may be used, see our protocol: Conjugation Protocol for Amine Reactive Dyes.

Optical Data for Cyanine 5, SE

Cyanine 5, SE Dye Spectra
Emission Color Red
λabs 649 nm
λem 666 nm
Extinction Coefficient (ε) 250000 M-1cm-1
Quantum Yield (φ) 0.2
Closest Laser line 647 nm
Reactive Group NHS ester
Reactivity Primary amines
Cell Permeable No
Correction Factor 260 0.03
Correction Factor 280 0.04
Application Fluorescence Microscopy, Confocal Microscopy, Flow cytometry
Alternative For Alexa Fluor 647; DyLight 649

Alexa Fluor® is a registered trademark of Molecular Probes, Inc, a Thermo Fisher Scientific Company.

Plan Your Experiments

Use our spectra viewer to interactively plan your experiments, assessing multiplexing options. View the excitation and emission spectra for our fluorescent dye range and other commonly used dyes.

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Technical Data for Cyanine 5, SE

M. Wt 753.88
Formula C37H43N3O10S2
Storage Store at -20°C
Purity ≥95% (HPLC)
CAS Number 146368-14-1
PubChem ID 118705155
Smiles CC1(C)C2=C(C=CC(S(=O)(O)=O)=C2)N(CCCCCC(ON3C(CCC3=O)=O)=O)/C1=C/C=C/C=C/C4=[N+](CC)C5=C(C=C(S(=O)([O-])=O)C=C5)C4(C)C

The technical data provided above is for guidance only. For batch specific data refer to the Certificate of Analysis.

Tocris products are intended for laboratory research use only, unless stated otherwise.

Solubility Data for Cyanine 5, SE

Solvent Max Conc. mg/mL Max Conc. mM
DMSO 75.39 100
DMF 75.39 100

Preparing Stock Solutions for Cyanine 5, SE

The following data is based on the product molecular weight 753.88. Batch specific molecular weights may vary from batch to batch due to the degree of hydration, which will affect the solvent volumes required to prepare stock solutions.

Select a batch to recalculate based on the batch molecular weight:
Concentration / Solvent Volume / Mass 1 mg 5 mg 10 mg
1 mM 1.33 mL 6.63 mL 13.26 mL
5 mM 0.27 mL 1.33 mL 2.65 mL
10 mM 0.13 mL 0.66 mL 1.33 mL
50 mM 0.03 mL 0.13 mL 0.27 mL

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Product Datasheets for Cyanine 5, SE

Certificate of Analysis / Product Datasheet
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References for Cyanine 5, SE

References are publications that support the biological activity of the product.

Shin et al (2014) Live-cell imaging of Pol II promoter activity to monitor gene expression with RNA IMAGEtag reporters. Nucleic Acids Res. 42 e90 PMID: 24753407

If you know of a relevant reference for Cyanine 5, SE, please let us know.

Keywords: Cyanine 5, SE, Cyanine 5, SE supplier, Cyanine, 5SE, red, fluorescent, dyes, amines, labeling, Cy5, NHS, Ester, Dyes, (Cy, Dyes), Flow, Cytometry, 5436, Tocris Bioscience

1 Citation for Cyanine 5, SE

Citations are publications that use Tocris products. Selected citations for Cyanine 5, SE include:

Erik A et al (2022) Directed Evolution of Fluorescent Proteins in Bacteria. Methods Mol Biol 2564 75-97 PMID: 36107338

Do you know of a great paper that uses Cyanine 5, SE from Tocris? Please let us know.

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Protocols for Cyanine 5, SE

The following protocol features additional information for the use of Cyanine 5, SE (Cat. No. 5436).

Literature in this Area

Tocris offers the following scientific literature in this area to showcase our products. We invite you to request* your copy today!

*Please note that Tocris will only send literature to established scientific business / institute addresses.

Fluorescent Dyes and Probes Research Product Guide

Fluorescent Dyes and Probes Research Product Guide

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