A Simple Molecular Rotor for Defining Nucleoside Environment within a DNA Aptamer-Protein Complex
| Autor: | Abigail J Van Riesen, Ahmed Y. Desoky, Florence D. Berger, Thomas Z. Cservenyi, Richard A. Manderville |
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| Rok vydání: | 2016 |
| Předmět: |
0301 basic medicine
Circular dichroism Spectrometry Mass Electrospray Ionization Stereochemistry Aptamer 010402 general chemistry 01 natural sciences Biochemistry Nucleobase 03 medical and health sciences chemistry.chemical_compound Thrombin medicine A-DNA Chemistry Circular Dichroism Nucleosides General Medicine Aptamers Nucleotide Fluorescence 0104 chemical sciences 030104 developmental biology Spectrometry Fluorescence Molecular Medicine Spectrophotometry Ultraviolet Thymidine Nucleoside medicine.drug |
| Zdroj: | ACS chemical biology. 11(9) |
| ISSN: | 1554-8937 |
| Popis: | The simple 5-furyl-2'-deoxyuridine ((Fur)dU) nucleobase exhibits dual probing characteristics displaying emissive sensitivity to changes in microenvironment polarity and to changes in solvent rigidity due to its molecular rotor character. Here, we demonstrate its ability to define the microenvironment of the various thymidine (T) loop residues within the thrombin binding aptamer (TBA) upon antiparallel G-quadruplex (GQ) folding and thrombin binding. The emissive sensitivity of the (Fur)dU probe to microenvironment polarity provides a diagnostic handle to distinguish T bases that are solvent-exposed within the GQ structure compared with probe location in the apolar duplex. Its molecular rotor properties then provide a turn-on fluorescent switch to identify which T residues within the GQ bind specifically to the protein target (thrombin). The fluorescence sensing characteristics of (Fur)dU make it an attractive tool for mapping aptamer-protein interactions at the nucleoside level for further development of modified aptamers for a wide range of diagnostic and therapeutic applications. |
| Databáze: | OpenAIRE |
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