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Innately Water-Soluble Isatoic Anhydrides with Modulated Reactivities for RNA SHAPE Analysis.
Adam B Fessler, Abhishek Dey, Dominic S Finis
1NuChemie, LLC, Charlotte, North Carolina 28227, United States.
Bioconjugate Chemistry
|February 11, 2020
Summary
New water-soluble isatoic anhydride reagents offer variable reactivity for RNA structural probing. These novel electrophiles overcome the solubility limitations of existing reagents like 1-Methyl-7-nitroisatoic anhydride (1M7).
Area of Science:
- Biochemistry
- Molecular Biology
- Organic Chemistry
Background:
- 1-Methyl-7-nitroisatoic anhydride (1M7) and 2-methylnicotinic acid imidazolide (NAI) are common RNA SHAPE electrophiles.
- 1M7 offers high reactivity but poor water solubility, while NAI has good solubility but lower reactivity.
- Limited solubility of 1M7 hinders its application in aqueous environments.
Purpose of the Study:
- To develop novel, water-soluble isatoic anhydride-based reagents for RNA SHAPE experiments.
- To create electrophiles with tunable reactivity and improved aqueous solubility.
- To provide alternatives to existing RNA SHAPE reagents with enhanced properties.
Main Methods:
- Synthesis of novel isatoic anhydride derivatives incorporating a quaternary ammonium group for solubility.
- Functionalization of the aryl ring to modulate electrophile reactivity.
- Comparative *in vitro* RNA SHAPE experiments using the new reagents and 1M7.
Main Results:
- Successfully synthesized water-soluble isatoic anhydride-based reagents.
- Demonstrated variable reactivity by altering aryl ring functionalization.
- New reagents showed suitability for *in vitro* RNA SHAPE experiments, comparable to 1M7.
Conclusions:
- The developed isatoic anhydride reagents are water-soluble and possess tunable reactivity.
- These novel electrophiles provide a viable alternative to 1M7 for RNA structural analysis.
- The findings facilitate broader application of RNA SHAPE in aqueous biological systems.
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