Cyanine dyes are molecules containing polymethine bridges between two nitrogen atoms with a delocalized charge which have been used for many years as dyes in life science. Since the Cy3, Cy5 and Cy7 were made commercially available as succinimidyl esters in the early 1990s, cyanine dyes began to be used widely as labels for nucleic acids. Because of the good properties of low non-specific binding to biomolecules and bright fluorescence owing to their huge extinction coefficients and good quantum yields, the Cy dyes have been widespread used in DNA and RNA labelling. Cyanine dyes can be divided into two groups based on water solubility: non-sulfonated cyanines and sulfonated cyanines.
Available non-sulfonated dyes include Cy3, Cy3.5, Cy5, Cy5.5, Cy7, and Cy7.5. Cy stands for 'cyanine', and the first digit identifies the number of carbon atoms between the indolenine groups. The suffix .5 is added for benzo-fused cyanines. Most derivatives of non-sulfonated cyanines have low aqueous solubility except for hydrochlorides of hydrazides and amines. They are organic co-solvent soluble (5-20% of DMF or DMSO). When these molecules are used for biomolecule labeling, they should be dissolved in organic solvent first, and added to a solution of biomolecule (protein, peptide, amino-labeled DNA) in appropriate aqueous buffer. Fluorescent properties of non-sulfonated cyanines have little dependence on solvent and surrounding.
Available sulfonated cyanines include sulfo-Cy3, sulfo-Cy5, and sulfo-Cy7, which have additional sulfo-groups that facilitate dissolution of dye molecules in aqueous phase. Charged sulfonate groups decrease aggregation of dye molecules and heavily labeled conjugates. Sulfonated cyanines are highly water soluble, and they do not use organic co-solvent for the labeling in aqueous environment.
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- A8264 Cy3.5 maleimide (non-sulfonated)Summary: Labeling of cysteine residues, as well as other thiolated molecules
- A8266 Cy3.5 hydrazide (non-sulfonated)Summary: carbonyl-reactive dye
- A8261 Cy5.5 hydrazide (non-sulfonated)Summary: carbonyl-reactive dye
- A8265 Cy3 hydrazide (non-sulfonated)Summary: carbonyl-reactive dye
- A8128 Cy5 azideSummary: used for Click chemistry to label alkyne-modified oligonucleotides
- A8145 Cy5 hydrazide (non-sulfonated)Summary: carbonyl-reactive dye
- A8144 Cy5 Boc-hydrazide (non-sulfonated)Summary: carbonyl-reactive dye
- A8127 Cy3 azideSummary: used for Click chemistry to label alkyne-modified oligonucleotides
- A8143 Cy5 amine (non-sulfonated)1 CitationSummary: can be conjugated with reactive groups such as NHS esters, carboxy groups (after carbodiimide activation), and epoxides.
- A8142 Cy7.5 maleimide(non-sulfonated)Summary: Labeling of cysteine residues, as well as other thiolated molecules