CY5-N3  (Synonyms: Sulfo-Cyanine5-azide)

CY5-N3 (Sulfo-Cyanine5-azide) is a Cy5-azide, which is a fluorescent dye (ex/em: 646/662 nm). CY5-N3 is cell membrane permeable and can be used for live cell imaging. CY5-N3 can be used in cell imagine by Click reaction^[1][2].

Guidelines (The following is our recommended protocol. It is provided as a guide only and should be modified to suit your specific needs).
1.1 Preparation of storage solution^[3]
Use anhydrous DMSO to prepare Cy5-N3 stock solution.
Note: It is recommended to store the Cy5-N3 storage solution at -20℃ or -80℃ in the dark after aliquoting.
1.2 Preparation of working solution
Use preheated serum-free cell culture medium or PBS to dilute the storage solution to prepare a 100 µM Cy5-N3 working solution.
Note: Please adjust the concentration of Cy5-N3 working solution according to the actual situation and prepare it before use.
2 Specific staining steps
1) Incubate Yersinia pseudotuberculosis YPIII (pIB102; pFU95) cells in calcium-deficient LB medium at 26°C for 1 h and then at 37°C for 2 h to induce the T3SS with or without the addition of test compounds.
2) Dilute the bacterial suspension 1:5 with PBS and transfer 50 µL to microfluidic chambers (CellASIC ONIX B04A-03 plates).
3) Prepare the click reaction mixture: add 0.1 mM CuSO₄ (HY-Y1878), 128 µM TBTA (HY-116677), 5 mM Sodium ascorbate (HY-B0166A), and 100 µM Cy5-N3 to PBS.
4) Wash the chambers with PBS at a flow rate of 4 psi for 10 min.
5) Inject the click reaction mixture into the chambers at a pressure of 8 psi for 5 min and then at 4 psi for 60 min to complete the conjugation reaction.
6) Remove excess reagents by washing with PBS at 8 psi for 10 min and 4 psi for 20 min.
7) Analyze the stained bacteria using a confocal spinning disk microscope (far red 647 laser) to detect the fluorescent signal.

MedChemExpress (MCE) has not independently confirmed the accuracy of these methods. They are for reference only.

738.92

C₃₆H₄₆N₆O₇S₂

1621101-43-6

Solid

Brown to reddish brown

670

645

CC1(C)/C(N(C2=CC=C(S(=O)(O)=O)C=C21)CCCCCC(NCCCN=[N+]=[N-])=O)=C\C=C\C=C\C(C(C)(C3=CC(S(=O)([O-])=O)=CC=C43)C)=[N+]4CC

Room temperature in continental US; may vary elsewhere.

-20°C, protect from light

*The compound is unstable in solutions, freshly prepared is recommended.

* Please refer to the solubility information to select the appropriate solvent. The compound is unstable in solutions, freshly prepared is recommended.

• [1]. Su Y, et al. Multiplex imaging and cellular target identification of kinase inhibitors via an affinity-based proteome profiling approach. Sci Rep. 2015 Jan 12;5:7724.  [Content Brief]

  [2]. Lam YY, et al. Systematic investigation of metabolic oligosaccharide engineering efficiency in intestinal cells using a dibenzocyclooctyne-monosaccharide conjugate. Chembiochem. 2023 Mar 16:e202300144.  [Content Brief]

  [3]. Sundin C, et al. Exploring resveratrol dimers as virulence blocking agents - Attenuation of type III secretion in Yersinia pseudotuberculosis and Pseudomonas aeruginosa. Sci Rep. 2020 Feb 7;10(1):2103.  [Content Brief]