Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Nucleic Acid Structure01:25

Nucleic Acid Structure

5.8K
The pentose sugar in DNA is deoxyribose, while in RNA the pentose sugar is ribose. The difference between the sugars is the presence of the hydroxyl group on the ribose's second carbon and a hydrogen on the deoxyribose's second carbon. The phosphate residue attaches to the hydroxyl group of the 5′ carbon of one sugar and the hydroxyl group of the 3′ carbon of the sugar of the next nucleotide, which forms  a 5′ to 3′ phosphodiester linkage.
DNA Structure
DNA...
5.8K
Nucleic Acids02:43

Nucleic Acids

42.9K
Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and carry instructions for its functioning.
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes,...
42.9K
Nucleic acids02:43

Nucleic acids

156.4K
Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and carry instructions for its functioning.
DNA and RNA
The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA). DNA is the genetic material in all living organisms, ranging from single-celled bacteria to multicellular mammals. It is in the nucleus of eukaryotes and in the organelles, chloroplasts, and mitochondria. In prokaryotes,...
156.4K
Types of RNA01:23

Types of RNA

62.6K
Overview
Three main types of RNA are involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). These RNAs perform diverse functions and can be broadly classified as protein-coding or non-coding RNA. Non-coding RNAs play important roles in the regulation of gene expression in response to developmental and environmental changes. Non-coding RNAs in prokaryotes can be manipulated to develop more effective antibacterial drugs for human or animal use.
RNA...
62.6K
RNA Structure01:19

RNA Structure

4.5K
The basic structure of RNA consists of a string of ribonucleotides attached by phosphodiester bonds. Although most RNA is single-stranded, it can form complex secondary and tertiary structures. Such structures play essential roles in the regulation of transcription and translation.
Different Types of RNA Have the Same Basic Structure
There are three main types of ribonucleic acid (RNA) involved in protein synthesis: messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three...
4.5K
RNA Stability01:53

RNA Stability

33.0K
Intact DNA strands can be found in fossils, while scientists sometimes struggle to keep RNA intact under laboratory conditions. The structural variations between RNA and DNA underlie the differences in their stability and longevity. Because DNA is double-stranded, it is inherently more stable. The single-stranded structure of RNA is less stable but also more flexible and can form weak internal bonds. Additionally, most RNAs in the cell are relatively short, while DNA can be up to 250 million...
33.0K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

NMR analysis of interaction between RNA structure elements and small molecules: evaluation of RNA libraries and confirmation by two more molecules.

Journal of biochemistry·2026
Same author

Small Molecule Modulation of APOBEC3A-Catalyzed Cytosine Deamination in CCG Repeat Deoxyribonucleic Acid via Stabilization of Hairpin Structures.

Biochemistry·2025
Same author

Naphthyridine carbamate dimer ligand induces formation of Z-RNA-like fold of disease-related RNA and exhibits a molecular glue characteristics in crystal lattice formation.

Nucleic acids research·2025
Same author

Identification and structural insights into RNA motifs targeted by a CAG repeat DNA-binding small molecule.

Chemical science·2025
Same author

Interaction between a fluoroquinolone derivative KG022 and RNAs: effect of the bulged residues.

Journal of biochemistry·2025
Same author

Interventionally targeting somatic CAG expansions can be a rapid disease-modifying therapeutic avenue: Preclinical evidence.

bioRxiv : the preprint server for biology·2025
Same journal

Estrogen-related receptor γ functions as a novel corepressor of androgen receptor by destabilizing receptor conformation and blocking coactivator recruitment.

Journal of biochemistry·2026
Same journal

Chromatin dynamics and cellular energy homeostasis.

Journal of biochemistry·2026
Same journal

Nutrigenomic Regulation of One-Carbon Metabolism and the Circadian Clock in Health and Disease.

Journal of biochemistry·2026
Same journal

Time to rethink circadian rhythms beyond the transcriptome.

Journal of biochemistry·2026
Same journal

BNIP3/NIX-dependent mitophagy: molecular mechanisms and physiological roles.

Journal of biochemistry·2026
Same journal

Regulatory mechanism of heme-regulated inhibitor through autophosphorylation-driven activation and heme-induced deactivation.

Journal of biochemistry·2026
See all related articles

Related Experiment Video

Updated: May 10, 2025

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
10:34

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Published on: December 9, 2022

3.9K

NMR analysis of interaction between RNA structure elements and small molecules.

Megumi Tomemori1, Rika Ichijo1, Yoko Shinohara1

  • 1Department of Life Science, Graduate School of Advanced Engineering, Chiba Institute of Technology, 2-17-1 Tsudanuma, Narashino, Chiba 275-0016, Japan.

Journal of Biochemistry
|April 28, 2025
PubMed
Summary
This summary is machine-generated.

This study explores RNA-small molecule interactions for drug discovery. Naphthyridine carbamate dimer (NCD) showed stronger binding affinity to model RNAs, with binding sites identified using NMR spectroscopy.

Keywords:
CPFXNCDNMRRNA-targeted drug discoveryrisdiplam

More Related Videos

An Assay for Quantifying Protein-RNA Binding in Bacteria
07:02

An Assay for Quantifying Protein-RNA Binding in Bacteria

Published on: June 12, 2019

6.5K
Using In Vitro and In-cell SHAPE to Investigate Small Molecule Induced Pre-mRNA Structural Changes
11:58

Using In Vitro and In-cell SHAPE to Investigate Small Molecule Induced Pre-mRNA Structural Changes

Published on: January 30, 2019

8.2K

Related Experiment Videos

Last Updated: May 10, 2025

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
10:34

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Published on: December 9, 2022

3.9K
An Assay for Quantifying Protein-RNA Binding in Bacteria
07:02

An Assay for Quantifying Protein-RNA Binding in Bacteria

Published on: June 12, 2019

6.5K
Using In Vitro and In-cell SHAPE to Investigate Small Molecule Induced Pre-mRNA Structural Changes
11:58

Using In Vitro and In-cell SHAPE to Investigate Small Molecule Induced Pre-mRNA Structural Changes

Published on: January 30, 2019

8.2K

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Drug Discovery

Background:

  • RNA-targeted small molecule drug discovery is a crucial therapeutic modality.
  • Limited knowledge exists regarding specific RNA-small molecule interactions.

Purpose of the Study:

  • To investigate interactions between designed RNA molecules and small molecule compounds.
  • To identify potential drug candidates for RNA-targeted therapies.

Main Methods:

  • Designed 46 RNA variants with diverse loop structures based on a 29-mer model.
  • Utilized Nuclear Magnetic Resonance (NMR) spectroscopy to examine RNA-small molecule interactions.
  • Quantitatively analyzed experimental results to select interacting RNAs.

Main Results:

  • Evaluated interactions with risdiplam, naphthyridine carbamate dimer (NCD), and ciprofloxacin.
  • NCD demonstrated relatively stronger affinity for specific model RNAs via NMR analysis.
  • Determined the binding sites of NCD on two selected RNA molecules.

Conclusions:

  • Established optimized NMR screening conditions (annealing-free, Mg2+-free buffer) for initial RNA-targeted drug discovery.
  • Identified NCD as a promising compound for further investigation in RNA-targeted drug development.