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Cy3B alkyne

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Physical properties
Molecular weight950.15
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 yield0.581
Storage, safety and handling
H-phraseH303, H313, H333
Hazard symbolXN
Intended useResearch Use Only (RUO)
R-phraseR20, R21, R22
StorageFreeze (< -15 °C); Minimize light exposure
Direct upgrades
iFluor® 555 alkyne


Molecular weight
Correction Factor (260 nm)
Correction Factor (280 nm)
Extinction coefficient (cm -1 M -1)
Excitation (nm)
Emission (nm)
Quantum yield
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. However, Cy3 suffers low fluorescence intensity. It 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. Cy3B alkyne can be used for conjugations with azide-containing biological molecules. Cy3® is the trademark of GE Healthcare.


Common stock solution preparation

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

0.1 mg0.5 mg1 mg5 mg10 mg
1 mM105.247 µL526.233 µL1.052 mL5.262 mL10.525 mL
5 mM21.049 µL105.247 µL210.493 µL1.052 mL2.105 mL
10 mM10.525 µL52.623 µL105.247 µL526.233 µL1.052 mL

Molarity calculator

Enter any two values (mass, volume, concentration) to calculate the third.

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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 yield0.581

Product Family

NameExcitation (nm)Emission (nm)Extinction coefficient (cm -1 M -1)Correction Factor (280 nm)
Cy3B DBCO56057112000010.069
Cy3B TCO56057112000010.069
Cy3B Tetrazine56057112000010.069
AMCA Alkyne346434190000.153
XFD488 alkyne *Same Structure to Alexa Fluor™ 488 alkyne*499520710000.11
ICG alkyne7898132300000.076
XFD647 Alkyne6506712700000.03



View all 7 references: Citation Explorer
Sequence-Specific Post-Synthetic Oligonucleotide Labeling for Single-Molecule Fluorescence Applications.
Authors: Egloff, David and Oleinich, Igor A and Zhao, Meng and König, Sebastian L B and Sigel, Roland K O and Freisinger, Eva
Journal: ACS chemical biology (2016): 2558-67
Synthesis and labeling of α-(2,9)-trisialic acid with cyanine dyes for imaging of glycan-binding receptors on living cells.
Authors: Zhang, Xiao-tai and Gu, Zhen-yuan and Liu, Libing and Wang, Shu and Xing, Guo-wen
Journal: Chemical communications (Cambridge, England) (2015): 8606-9
Size-matched alkyne-conjugated cyanine fluorophores to identify differences in protein glycosylation.
Authors: Burnham-Marusich, Amanda R and Plechaty, Anna M and Berninsone, Patricia M
Journal: Electrophoresis (2014): 2621-5
Rapid labeling of metabolically engineered cell-surface glycoconjugates with a carbamate-linked cyclopropene reporter.
Authors: Späte, Anne-Katrin and Bußkamp, Holger and Niederwieser, Andrea and Schart, Verena F and Marx, Andreas and Wittmann, Valentin
Journal: Bioconjugate chemistry (2014): 147-54
Clickable degradable aliphatic polyesters via copolymerization with alkyne epoxy esters: synthesis and postfunctionalization with organic dyes.
Authors: Teske, Nele S and Voigt, Julia and Shastri, V Prasad
Journal: Journal of the American Chemical Society (2014): 10527-33
A combination of metabolic labeling and 2D-DIGE analysis in response to a farnesyltransferase inhibitor facilitates the discovery of new prenylated proteins.
Authors: Palsuledesai, Charuta C and Ochocki, Joshua D and Markowski, Todd W and Distefano, Mark D
Journal: Molecular bioSystems (2014): 1094-103
Stepwise orthogonal click chemistry toward fabrication of paclitaxel/galactose functionalized fluorescent nanoparticles for HepG2 cell targeting and delivery.
Authors: Lai, Chian-Hui and Chang, Tsung-Che and Chuang, Yung-Jen and Tzou, Der-Lii and Lin, Chun-Cheng
Journal: Bioconjugate chemistry (2013): 1698-709