Cy3B NHS ester

Cy3® dye is one of the most common cyanine dyes used for labeling proteins, nucleic acids and other biological molecules. A variety of Cy3® dyes has been used to label biological molecules for fluorescence imaging and other fluorescence-based biochemical analysis. They are widely used for labeling peptides, proteins and oligos etc. Cy3 is the least fluorescent dyes among all the Cy dyes. Cy3B is an improved version of Cy3 dyes with significantly increased fluorescence quantum yield and photostability. Cy3® is the trademark of GE Healthcare.

Calculators

Common stock solution preparation

Table 1. Volume of DMSO needed to reconstitute specific mass of Cy3B NHS ester to given concentration. Note that volume is only for preparing stock solution. Refer to sample experimental protocol for appropriate experimental/physiological buffers.

	0.1 mg	0.5 mg	1 mg	5 mg	10 mg
1 mM	152.036 µL	760.179 µL	1.52 mL	7.602 mL	15.204 mL
5 mM	30.407 µL	152.036 µL	304.072 µL	1.52 mL	3.041 mL
10 mM	15.204 µL	76.018 µL	152.036 µL	760.179 µL	1.52 mL

Molarity calculator

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Mass (Calculate)		Molecular weight		Volume (Calculate)		Concentration (Calculate)		Moles
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Spectrum

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Product family

Name	Excitation (nm)	Emission (nm)	Extinction coefficient (cm ^-1 M ^-1)	Correction Factor (260 nm)	Correction Factor (280 nm)
Cy3DIGE NHS ester	555	569	150000¹	0.07	0.073
Cy2DIGE NHS ester	492	508	150000	0.08	0.15
Cy5DIGE NHS ester	651	670	250000¹	0.02	0.03
CypHer5E NHS Ester	643	660	-	-	-
CypHer7E NHS Ester	748	769	-	-	-
QXY21 NHS ester [equivalent to QSY-21 NHS ester]	-	-	89000¹	-	0.32
QXY7 NHS ester [equivalent to QSY-7 NHS ester]	-	-	90000¹	-	0.22
XFD350 NHS Ester	343	441	19000	0.25	0.19
XFD430 NHS ester	432	540	15,000	-	0.28
XFD488 NHS Ester	499	520	71000	0.30	0.11
XFD514 NHS Ester	518	543	80000	0.31	0.18
XFD532 NHS Ester	534	553	81000	0.24	0.09
XFD546 NHS Ester	561	572	112000	0.21	0.12
XFD555 NHS Ester	553	568	150000	0.08	0.08
XFD568 NHS Ester	579	603	91300	0.45	0.46
XFD594 NHS Ester	590	618	90000	0.43	0.56
XFD647 NHS Ester	650	671	239000	0.00	0.03
XFD660 NHS Ester	663	691	132000	0.00	0.10
XFD680 NHS Ester	681	704	184000	0.00	0.05
XFD700 NHS Ester	696	719	192000	0.00	0.07
XFD750 NHS Ester	752	776	240000	0.00	0.04
XFD790 NHS Ester	782	805	260,000	0.09	0.08
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Citations

View all 3 citations: Citation Explorer

Homogeneous fluorescence anisotropy-based assay for characterization of ligand binding dynamics to GPCRs in budded baculoviruses: the case of Cy3B-NDP-alpha-MSH binding to MC4 receptors
Authors: Veiksina, S., Kopanchuk, S., Mazina, O., Link, R., Lille, A., Rinken, A.
Journal: Methods Mol Biol (2015): 37-50

A highly fluorescent DNA toolkit: synthesis and properties of oligonucleotides containing new Cy3, Cy5 and Cy3B monomers
Authors: Hall, L. M., Gerowska, M., Brown, T.
Journal: Nucleic Acids Res (2012): e108

Cy3B: improving the performance of cyanine dyes
Authors: Cooper, M., Ebner, A., Briggs, M., Burrows, M., Gardner, N., Richardson, R., West, R.
Journal: J Fluoresc (2004): 145-50

Page updated on August 16, 2025

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Catalog Number	941949
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Physical properties

Molecular weight	657.74
Solvent	DMSO

Spectral properties

Correction Factor (260 nm)	0.048
Correction Factor (280 nm)	0.069
Extinction coefficient (cm ^-1 M ^-1)	120000¹
Excitation (nm)	560
Emission (nm)	571
Quantum yield	0.58¹