Janelia Fluor® 635, SE

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Cat.No. 6419 - Janelia Fluor 635, SE | C33H29F2N3O6Si
Description: Red dye (Reactive group: NHS ester). Applications: super resolution microscopy, confocal, flow and live cell imaging
Alternative Names: JF 635, NHS
Chemical Name: 1-[10-[2-Carboxy-5-[[(2,5-dioxo-1-pyrrolidinyl)oxy]carbonyl]phenyl]-9,9-dimethyl-7-[1-(3-fluoroazetidinyl)]-9-silaanthracen-2(9H)-ylidene]-3-fluoroazetidinium, inner salt
Protocols (1)
Literature (1)

Biological Activity

Red fluorogenic fluorescent dye; supplied as an NHS ester for coupling to primary amine groups. NHS ester can be converted to relevant substrate for use in self-labeling tag systems, e.g. HaloTag® and SNAP-tag®. Suitable for confocal fluorescent imaging and super resolution microscopy (SRM) techniques, such as dSTORM (live and fixed cells). Also suitable for flow cytometry. Cell permeable. Excitation maximum = 635 nm; emission maximum = 652 nm; Quantum yield = 0.56; Max extinction coefficient = 167,000 M-1cm-1 (measured in Ethanol or TFE plus 0.1% TFA); Correction factor = 0.0524. Exhibits low nonspecific background staining.

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.

HaloTag is a trademark of Promega Corporation, and SNAP-tag is a trademark of New England BioLabs, Inc.

Licensing Information

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

Application of Janelia Fluor® 635, SE dye on Mitochondria

Janelia Fluor® 635, SE Dye-labeled Mitochondria Janelia Fluor® 635, SE Dye-labeled Mitochondria

Application of Janelia Fluor® 635, SE dye on mitochondria; Left: Mitochondria were labeled with anti-TOM20 primary antibodies. The secondary antibodies were conjugated to JF 635 dye Left: Maximum intensity projection of confocal z-stack, recorded on an Olympus FV1200 confocal microscope. Right: Enlarged portion of left-hand image.

Images kindly provided by Dr Kirstin Elgass, Monash University

Optical Data for Janelia Fluor® 635, SE

Janelia Fluor<sup>®</sup> 635, SE Dye Spectra
Emission Color Red
λabs 635 nm
λem 652 nm
Extinction Coefficient (ε) 167,000 M-1cm-1
Quantum Yield (φ) 0.56
Closest Laser line 635 nm
Reactive Group NHS ester
Reactivity Primary amines
Cell Permeable Yes
Correction Factor 280 0.0524
Application Confocal imaging, SRM, Flow
Alternative For Alexa Fluor® 633, Atto 633, CF633

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

Technical Data

M. Wt 629.69
Formula C33H29F2N3O6Si
Storage Store at -20°C
PubChem ID 132470914
Smiles O=C(ON1C(CCC1=O)=O)C2=CC=C(C([O-])=O)C(C(C3=CC=C(N4CC(F)C4)C=C3[Si]5(C)C)=C(C=C/6)C5=CC6=[N+]7CC(F)C\7)=C2

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

Solvent Max Conc. mg/mL Max Conc. mM
DMSO 62.97 100

Preparing Stock Solutions

The following data is based on the product molecular weight 629.69. 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 1.59 mL 7.94 mL 15.88 mL
5 mM 0.32 mL 1.59 mL 3.18 mL
10 mM 0.16 mL 0.79 mL 1.59 mL
50 mM 0.03 mL 0.16 mL 0.32 mL

Molarity Calculator

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*When preparing stock solutions always use the batch-specific molecular weight of the product found on the vial label and SDS / CoA (available online).

Reconstitution Calculator

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Dilution Calculator

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

Grimm et al (2017) A general method to fine-tune fluorophores for live-cell and in vivo imaging. Nat.Methods 14 987 PMID: 28869757

If you know of a relevant reference for Janelia Fluor® 635, SE, please let us know.

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Citations for Janelia Fluor® 635, SE

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Protocols for Janelia Fluor® 635, SE

The following protocol features additional information for the use of Janelia Fluor® 635, SE (Cat. No. 6419).

Literature in this Area

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

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