Hydrazide rhodamine derivatives

Lissamine rhodamine B sulfonyl hydrazine is a hydrazide derivative of sulforhodamine B that can spontaneously react with aldehyde- or ketone-containing molecules to form a covalent,... 

Texas Red hydrazide is a derivative of Texas Red sulfonyl chloride made by reaction with hydrazine (Invitrogen). The result is a sulfonyl hydrazine group on the No. 5 carbon position of the lower-ring structure of sulforhodamine 101. The intense Texas Red fluorophore has a QY that is inherently higher than either the tetramethylrhodamine or Lissamine rhodamine B derivatives of the basic rhodamine molecule. Texas Red s luminescence is shifted maximally into the red region of the spectrum, and its emission peak only minimally overlaps with that of fluorescein. This makes derivatives of this fluorescent probe among the best choices of labels for use in double-staining techniques. 

Lissamine rhodamine B sulfonyl hydrazine is a hydrazide derivative of sulforhodamine B that can spontaneously react with aldehyde- or ketone-containing molecules to form a covalent, hydrazone linkage (Fig. 217). It also can be used to label cytosine residues in DNA or RNA by use of the bisulfite activation procedure (Chapter 17, Section 2.1). The resulting fluorescent derivative exhibits an excitation maximum at a wavelength of 556 nm and a maximal emission wavelength of 580 nm when dissolved in methanol. In... 

In addition to proflavin and rhodamine, the photobleaching-resistant Cy3 and Cy5 fluorophores are also frequently used in single-molecule experiments and have been incorporated in the form of hydrazide derivatives into tRNAs via D residues (Pan et al., 2009) (Fig. 4.2). However, quantitative uptake of these hydrazide dyes requires modification of three reaction parameters higher concentrations of the hydrazide dyes (40 mM) than that required for proflavin or rhodamine (22 mM), pH 3.7 rather than pH 3.0, and 2 h reaction time instead of 45—90 min. The requirement of higher concentration is to promote formation of hydrazide adduct, while the slighdy elevated pH prevents hydrolysis of the adduct, which is acid labile. Thus, while the labeling method can be adapted to incorporate new fluorophores besides proflavin and rhodamine, it is prudent to systematically evaluate for the fluorophores under consideration for coupling efficiency as a function of dye concentration, pH, and reaction time. 

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