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AAT Bioquest

Cyanine 5.5 monosuccinimidyl ester, potassium salt [same as Cy5.5® NHS ester]

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Physical properties
Molecular weight1317.70
SolventDMSO
Spectral properties
Correction Factor (260 nm)0.05
Correction Factor (280 nm)0.101
Correction Factor (482 nm)0.0017
Correction Factor (565 nm)0.047
Correction Factor (650 nm)0.454
Extinction coefficient (cm -1 M -1)250000
Excitation (nm)683
Emission (nm)703
Quantum yield0.27
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
UNSPSC12171501

OverviewpdfSDSpdfProtocol


Molecular weight
1317.70
Correction Factor (260 nm)
0.05
Correction Factor (280 nm)
0.101
Correction Factor (482 nm)
0.0017
Correction Factor (565 nm)
0.047
Correction Factor (650 nm)
0.454
Extinction coefficient (cm -1 M -1)
250000
Excitation (nm)
683
Emission (nm)
703
Quantum yield
0.27
This Cy5.5® dye is the same molecule to GE's monoreactive Cy5.5® NHS ester. It readily reacts with amino groups. Our Cy5.5® Fluors are thoroughly QC tested to ensure high levels of chromophore and reactive dye content. Mono-reactive dyes are suitable for targeted, precise labeling of proteins and oligonucleotides and bis-reactive dyes are more suitable for general labeling. NHS ester dyes are recommended for labeling amine groups and maleimide dyes are recommended for labeling thiol groups. A variety of cyanine 5.5 (Cy5.5®) 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. Cy5.5® dyes are one type of the most common red fluorophores. Cy5.5® NHS ester readily reacts with amino groups. AAT Bioquest offers this Cy5.5 NHS esters in the form of potassium salt, which is the same molecule to GE's monreactive Cy5.5 NHS ester (GE's PA15601). Cy5.5® is the trademark of GE Healthcare.

Example protocol


PREPARATION OF STOCK SOLUTIONS

Unless otherwise noted, all unused stock solutions should be divided into single-use aliquots and stored at -20 °C after preparation. Avoid repeated freeze-thaw cycles.

1. Protein stock solution (Solution A)
Mix 100 µL of a reaction buffer (e.g., 1 M  sodium carbonate solution or 1 M phosphate buffer with pH ~9.0) with 900 µL of the target protein solution (e.g. antibody, protein concentration >2 mg/mL if possible) to give 1 mL protein labeling stock solution. Note: The pH of the protein solution (Solution A) should be 8.5 ± 0.5. If the pH of the protein solution is lower than 8.0, adjust the pH to the range of 8.0-9.0 using 1 M  sodium bicarbonate solution or 1 M pH 9.0 phosphate buffer. Note: The protein should be dissolved in 1X phosphate buffered saline (PBS), pH 7.2-7.4. If the protein is dissolved in Tris or glycine buffer, it must be dialyzed against 1X PBS, pH 7.2-7.4, to remove free amines or ammonium salts (such as ammonium sulfate and ammonium acetate) that are widely used for protein precipitation. Note: Impure antibodies or antibodies stabilized with bovine serum albumin (BSA) or gelatin will not be labeled well. The presence of sodium azide or thimerosal might also interfere with the conjugation reaction. Sodium azide or thimerosal can be removed by dialysis or spin column for optimal labeling results. Note: The conjugation efficiency is significantly reduced if the protein concentration is less than 2 mg/mL. For optimal labeling efficiency the final protein concentration range of 2-10 mg/mL is recommended.

2. Cyanine 5.5 monosuccinimidyl ester Potassium Salt stock solution (Solution B)
Add anhydrous DMSO into the vial of Cyanine 5.5 monosuccinimidyl ester Potassium Salt to make a 10 mM stock solution. Mix well by pipetting or vortex. Note: Prepare the dye stock solution (Solution B) before starting the conjugation. Use promptly. Extended storage of the dye stock solution may reduce the dye activity. Solution B can be stored in freezer for two weeks when kept from light and moisture. Avoid freeze-thaw cycles.

SAMPLE EXPERIMENTAL PROTOCOL

This labeling protocol was developed for the conjugate of Goat anti-mouse IgG with Cyanine 5.5 monosuccinimidyl ester Potassium Salt. You might need further optimization for your particular proteins. Note: Each protein requires distinct dye/protein ratio, which also depends on the properties of dyes. Over labeling of a protein could detrimentally affects its binding affinity while the protein conjugates of low dye/protein ratio gives reduced sensitivity.

Run conjugation reaction
  1. Use 10:1 molar ratio of Solution B (dye)/Solution A (protein) as the starting point:  Add 5 µL of the dye stock solution (Solution B, assuming the dye stock solution is 10 mM) into the vial of the protein solution (95 µL of Solution A) with effective shaking. The concentration of the protein is ~0.05 mM assuming the protein concentration is 10 mg/mL and the molecular weight of the protein is ~200KD. Note: We recommend to use 10:1 molar ratio of Solution B (dye)/Solution A (protein). If it is too less or too high, determine the optimal dye/protein ratio at 5:1, 15:1 and 20:1 respectively.
  2. Continue to rotate or shake the reaction mixture at room temperature for 30-60 minutes. 

Purify the conjugation
The following protocol is an example of dye-protein conjugate purification by using a Sephadex G-25 column.
  1. Prepare Sephadex G-25 column according to the manufacture instruction.
  2. Load the reaction mixture (From "Run conjugation reaction") to the top of the Sephadex G-25 column.
  3. Add PBS (pH 7.2-7.4) as soon as the sample runs just below the top resin surface.
  4. Add more PBS (pH 7.2-7.4) to the desired sample to complete the column purification. Combine the fractions that contain the desired dye-protein conjugate. Note: For immediate use, the dye-protein conjugate need be diluted with staining buffer, and aliquoted for multiple uses. Note: For longer term storage, dye-protein conjugate solution need be concentrated or freeze dried. 

Calculators


Common stock solution preparation

Table 1. Volume of DMSO needed to reconstitute specific mass of Cyanine 5.5 monosuccinimidyl ester, potassium salt [same as Cy5.5® 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 mg0.5 mg1 mg5 mg10 mg
1 mM75.89 µL379.449 µL758.898 µL3.794 mL7.589 mL
5 mM15.178 µL75.89 µL151.78 µL758.898 µL1.518 mL
10 mM7.589 µL37.945 µL75.89 µL379.449 µL758.898 µL

Molarity calculator

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Spectrum


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spectrum

Spectral properties

Correction Factor (260 nm)0.05
Correction Factor (280 nm)0.101
Correction Factor (482 nm)0.0017
Correction Factor (565 nm)0.047
Correction Factor (650 nm)0.454
Extinction coefficient (cm -1 M -1)250000
Excitation (nm)683
Emission (nm)703
Quantum yield0.27

Product Family


NameExcitation (nm)Emission (nm)Extinction coefficient (cm -1 M -1)Quantum yieldCorrection Factor (260 nm)Correction Factor (280 nm)Correction Factor (482 nm)Correction Factor (565 nm)Correction Factor (650 nm)
Cyanine 3.5 monosuccinimidyl ester, potassium salt [same as GE Cy3.5® NHS ester]5795911500000.150.080.178---
Cyanine 5.5 bissuccinimidyl ester, potassium salt [same as GE Cy5.5® bisNHS ester]6837032500000.270.050.1010.00170.0470.454

Images


Citations


View all 12 citations: Citation Explorer
Thermo-sensitive hydrogel PLGA-PEG-PLGA as a vaccine delivery system for intramuscular immunization
Authors: Wang, Xiaoyan and Zhang, Yu and Xue, Wei and Wang, Hong and Qiu, Xiaozhong and Liu, Zonghua
Journal: Journal of Biomaterials Applications (2017): 923--932
Cube-shaped theranostic paclitaxel prodrug nanocrystals with surface functionalization of SPC and MPEG-DSPE for imaging and chemotherapy
Authors: Guo, Fuqiang and Shang, Jiajia and Zhao, Hai and Lai, Kangrong and Li, Yang and Fan, Zhongxiong and Hou, Zhenqing and Su, Guanghao
Journal: Colloids and Surfaces B: Biointerfaces (2017)
Light/magnetic hyperthermia triggered drug released from multi-functional thermo-sensitive magnetoliposomes for precise cancer synergetic theranostics
Authors: Guo, Yuxin and Zhang, Yang and Ma, Jinyuan and Li, Qi and Li, Yang and Zhou, Xinyi and Zhao, Dan and Song, Hua and Chen, Qing and Zhu, Xuan
Journal: Journal of Controlled Release (2017)
Molecular Basis and Consequences of the Cytochrome c-tRNA Interaction
Authors: Liu, Cuiping and Stonestrom, Aaron J and Christian, Thomas and Yong, Jeongsik and Takase, Ryuichi and Hou, Ya-Ming and Yang, Xiaolu
Journal: Journal of Biological Chemistry (2016): 10426--10436
Click-electron microscopy for imaging metabolically tagged nonprotein biomolecules
Authors: Ngo, John T and Adams, Stephen R and Deerinck, Thomas J and Boassa, Daniela and Rodriguez-Rivera, Frances and Palida, Sakina F and Bertozzi, Carolyn R and Ellisman, Mark H and Tsien, Roger Y
Journal: Nat Chem Biol (2016): 459--465
Design, synthesis and evaluation of VEGF-siRNA/CRS as a novel vector for gene delivery
Authors: Zhao, Wen and Zhang, Yifan and Jiang, Xueyun and Cui, Chunying
Journal: Drug Design, Development and Therapy (2016): 3851
Affinity-Controlled Protein Encapsulation into Sub-30 nm Telodendrimer Nanocarriers by Multivalent and Synergistic Interactions
Authors: Wang, Xu and Shi, Changying and Zhang, Li and Bodman, Alexa and Guo, D and an , undefined and Wang, Lili and Hall, Walter A and Wilkens, Stephan and Luo, Juntao
Journal: Biomaterials (2016)
Carboxymethyl Dextran-Stabilized Polyethylenimine-Poly (epsilon-caprolactone) Nanoparticles-Mediated Modulation of MicroRNA-34a Expression via Small-Molecule Modulator for Hepatocellular Carcinoma Therapy
Authors: Deng, Xiongwei and Yin, Zhaoxia and Zhou, Zhixiang and Wang, Yihui and Zhang, Fang and Hu, Qin and Yang, Yishu and Lu, Jianqing and Wu, Yan and Sheng, Wang and others, undefined
Journal: ACS applied materials &amp; interfaces (2016): 17068--17079
Multiplexed single-cell in situ RNA analysis by reiterative hybridization
Authors: Xiao, Lu and Guo, Jia
Journal: Analytical Methods (2015): 7290--7295
Determination of the active transport of fucoidan derived from okinawa mozuku across the human intestinal caco-2 cells as assessed by size-exclusion chromatography
Authors: Nagamine, Takeaki and Hayakawa, Kou and Nakazato, Kyoumi and Iha, Masahiko
Journal: Journal of Chromatography B (2015): 187--193

References


View all 21 references: Citation Explorer
Excitation of Cy5 in self-assembled lipid bilayers using optical microresonators
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Journal: Appl Phys Lett (2011): 143703
Theranostic cRGD-BioShuttle Constructs Containing Temozolomide- and Cy7 For NIR-Imaging and Therapy
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Journal: Theranostics (2011): 381
Rational approach to select small peptide molecular probes labeled with fluorescent cyanine dyes for in vivo optical imaging
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Journal: Biochemistry (2011): 2691
In vivo detection of embryonic stem cell-derived cardiovascular progenitor cells using Cy3-labeled Gadofluorine M in murine myocardium
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Journal: JACC Cardiovasc Imaging (2009): 1114
Quantitative proteomics by fluorescent labeling of cysteine residues using a set of two cyanine-based or three rhodamine-based dyes
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Journal: Electrophoresis (2008): 4516
Surface plasmon resonance-enhanced fluorescence implementation of a single-step competition assay: demonstration of fatty acid measurement using an anti-fatty acid monoclonal antibody and a Cy5-labeled fatty acid
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Near-infrared fluorescence imaging of tumor integrin alpha v beta 3 expression with Cy7-labeled RGD multimers
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Cy7-Bis-dipicolylamine-zinc
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Cy7-Tetrameric arginine-glycine-aspartic acid peptide
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