Janelia Fluor® 646, Azide

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Description: Red dye (Reactive group: azide). Application: confocal microscopy, super resolution microscopy (SRM) including dSTORM & STED. Suitable for live cell imaging
Alternative Names: JF 646
Chemical Name: 2-(3-(Azetidin-1-ium-1-ylidene)-7-(azetidin-1-yl)-5,5-dimethyl-3,5-dihydrodibenzo[b,e]silin-10-yl)-4-((2-(2-(2-(2-azidoethoxy)ethoxy)ethoxy)ethyl)carbamoyl)benzoate
Purity: ≥95% (HPLC)
Literature (1)

Biological Activity for Janelia Fluor® 646, Azide

Key Information: Janelia Fluor® 646, Azide is a red fluorogenic fluorescent dye, supplied with an azide reactive handle for copper-free click chemistry. Suitable for live cell imaging.

Application: Suitable for confocal microscopy and super resolution microscopy (SRM) techniques including dSTORM (in both live and fixed cells) and STED. Can be multiplexed for two color imaging with Janelia Fluor® 549 SE (Cat. No. 6147). Cell permeable.

Properties and Photophysical Data: Excitation and emission maxima (λ) are 646 nm and 664 nm, respectively; quantum yield = 0.54; extinction coefficient = 152,000 M-1cm-1 (measured in ethanol plus 0.1% TFA); A280 correction factor = 0.19; lactone-zwitterion equilibrium constant (KL-Z) = 0.0012.

To measure the absorbance spectrum of this dye we recommend the following solvent: ethanol or trifluoroethanol plus 0.1% TFA.

We also offer Janelia Fluor® conjugated antibodies and custom conjugation services with our sister company Novus Biologicals.

Licensing Information

Sold under license from the Howard Hughes Medical Institute, Janelia Research Campus

Optical Data for Janelia Fluor® 646, Azide

Janelia Fluor<sup>®</sup> 646, Azide Dye Spectra
λabs 646 nm
λem 664 nm
Extinction Coefficient (ε) 152,000 M-1cm-1
Quantum Yield (φ) 0.54
Closest Laser line 640 nm
Reactive Group Azide
Reactivity Click
Cell Permeable Yes
Correction Factor 280 0.19
Application dSTORM, STED, Confocal Microscopy
Alternative For Alexa Fluor® 647, Atto 647, Atto 647N, CF640R, CF647, Cyanine 5

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

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Technical Data for Janelia Fluor® 646, Azide

M. Wt 696.88
Formula C37H44N6O6Si
Storage Store at -20°C
Purity ≥95% (HPLC)
Smiles O=C(NCCOCCOCCOCCN=[N+]=[N-])C1=CC=C(C([O-])=O)C(C(C2=CC=C(N3CCC3)C=C2[Si]4(C)C)=C(C=C/5)C4=CC5=[N+]6CCC\6)=C1

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 Janelia Fluor® 646, Azide

Solvent Max Conc. mg/mL Max Conc. mM
DMF 34.84 50

Preparing Stock Solutions for Janelia Fluor® 646, Azide

The following data is based on the product molecular weight 696.88. 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
0.5 mM 2.87 mL 14.35 mL 28.7 mL
2.5 mM 0.57 mL 2.87 mL 5.74 mL
5 mM 0.29 mL 1.43 mL 2.87 mL
25 mM 0.06 mL 0.29 mL 0.57 mL

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Product Datasheets for Janelia Fluor® 646, Azide

Certificate of Analysis / Product Datasheet
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References for Janelia Fluor® 646, Azide

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

Grimm et al (2015) A general method to improve fluorophores for live-cell and single-molecule microscopy. Nat Methods. 12 244 PMID: 25599551

Zheng et al (2019) Rational design of fluorogenic and spontaneously blinking labels for super-resolution imaging. ACS Cent.Sci. 5 1602 PMID: 31572787

If you know of a relevant reference for Janelia Fluor® 646, Azide, please let us know.

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Citations for Janelia Fluor® 646, Azide

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Fluorescent Dyes and Probes Research Product Guide

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