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Related Experiment Video

Updated: Jun 16, 2025

Determination of In Vitro and Cellular Turn-on Kinetics for Fluorogenic RNA Aptamers
08:11

Determination of In Vitro and Cellular Turn-on Kinetics for Fluorogenic RNA Aptamers

Published on: August 9, 2022

1.8K

Structure-based insights into fluorogenic RNA aptamers.

Qianqian Song1, Xiaoqing Tai1, Qianyu Ren2

  • 1Life Sciences Institute, Second Affiliated Hospital of Zhejiang University School of Medicine, Zhejiang University, Hangzhou 310058, China.

Acta Biochimica Et Biophysica Sinica
|August 16, 2024
PubMed
Summary
This summary is machine-generated.

Fluorogenic RNA aptamers are engineered RNA molecules that light up when binding to specific dyes. Their structures are key to improving RNA visualization in live cells.

Keywords:
G-quadruplexbase quadruplesbase triplesfluorescence activation mechanismsfluorogenic RNA aptamerstertiary structures

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Last Updated: Jun 16, 2025

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Area of Science:

  • Molecular Biology
  • Biochemistry
  • Structural Biology

Background:

  • Fluorogenic RNA aptamers are selected in vitro to bind fluorophores, enhancing fluorescence.
  • Expanded color palettes and applications in live-cell RNA imaging have emerged.
  • Structural determination via X-ray crystallography and NMR spectroscopy is crucial.

Purpose of the Study:

  • To review structure-based investigations of fluorogenic RNA aptamers.
  • To focus on RNA folds, ligand-binding pockets, and fluorescence activation.
  • To discuss structure-guided optimization for enhanced RNA visualization.

Main Methods:

  • In vitro selection techniques for aptamer discovery.
  • X-ray crystallography and NMR spectroscopy for structure determination.
  • Structure-based analysis of ligand-binding sites and fluorescence mechanisms.

Main Results:

  • Many fluorogenic RNA aptamers possess base quadruples or triples in binding sites.
  • Structural insights reveal mechanisms of fluorescence activation upon fluorophore binding.
  • Diverse tertiary structures contribute to aptamer function.

Conclusions:

  • Structure-based studies are vital for understanding fluorogenic RNA aptamer mechanisms.
  • Rational design based on structural data can optimize aptamer performance.
  • These aptamers offer powerful tools for live-cell RNA research.