Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

RNA Stability

RNA Stability

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...

RNA Stability

RNA Stability

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...

Single-Strand DNA Binding Proteins

Single-Strand DNA Binding Proteins

For successful DNA replication, the unwinding of double-stranded DNA must be accompanied by stabilization and protection of the separated single strands of the DNA. This crucial task is performed by single-strand DNA-binding (SSB) proteins. They bind to the DNA in a sequence-independent manner, which means that the nitrogenous bases of the DNA need not be present in a specific order for binding of SSB proteins to it. The binding of SSB proteins straightens single-stranded DNA (ssDNA) and makes...

RNA Structure

RNA Structure

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...

RNA Structure

RNA Structure

Overview
The basic structure of RNA consists of a five-carbon sugar and one of four nitrogenous bases. 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): messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three RNA types consist of a...

RNA Structure

RNA Structure

Overview
The basic structure of RNA consists of a five-carbon sugar and one of four nitrogenous bases. 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): messenger RNA (mRNA), transfer RNA (tRNA), and ribosomal RNA (rRNA). All three RNA types consist of a...

You might also read

Related Articles

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

Sort by

Same author

NMR characterization of the structure and interaction of an RNA aptamer targeting α-synuclein.

Biochemical and biophysical research communications·2026

Same author

Impact of Nucleotide Flexibility on Aptamer-Protein Recognition: RNA vs RNA-DNA Chimera.

ACS chemical biology·2026

Same author

Contrasting effects of different molecular crowding environments on base-pair opening/closing dynamics of DNA triplex structures.

The FEBS journal·2026

Same author

In-cell NMR spectra of chemically unmodified RNA at physiological temperature with extended lifetime through RNase inhibitor cocktail in living human cells.

Scientific reports·2025

Same author

Positive correlation between structural disorder of the HIV-1 Gag N-terminal segment and progeny virus particle formation.

Journal of virology·2025

Same author

Novel gelling agent similar to galactomannan from the sheath-forming bacterium Sphaerotilus hippei.

Journal of applied microbiology·2025

Search research articles

Related Experiment Video

Updated: Jul 18, 2026

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Published on: April 4, 2025

Structure, stability and application to functional DNA/RNA of unique quadruplex.

Emi Niyada¹, Hidetsugu Sotoya, Akimasa Matsugami

¹Department of Environment and Natural Sciences, Graduate School of Environment and Information Sciences, Yokohama National University, 79-7 Tokiwadai, Hodogaya-ku, Yokohama 240-8501, Japan.

Nucleic Acids Symposium Series (2004)

|December 8, 2006

Summary

Researchers developed a new method to distinguish hydrogen bonds in DNA multimers. This technique revealed the structure of a d(GGAGGAGGAGGA) (GGA 12-mer) DNA, showing its stability and use in regulating DNA activity.

More Related Videos

Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers

Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers

Published on: September 19, 2017

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines

Published on: May 12, 2023

Related Experiment Videos

Last Updated: Jul 18, 2026

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Single-Molecule Fluorescence Visualization of DNA Polymerase Dynamics at G-Quadruplexes

Published on: April 4, 2025

Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers

Single-molecule Manipulation of G-quadruplexes by Magnetic Tweezers

Published on: September 19, 2017

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines

In Vitro Chemical Mapping of G-Quadruplex DNA Structures by Bis-3-Chloropiperidines

Published on: May 12, 2023

Area of Science:

Molecular Biology
Biophysics
Structural Biology

Background:

Distinguishing between intra- and intermolecular hydrogen bonds is crucial for understanding DNA multimer structure and function.
Symmetric DNA multimers, such as the d(GGAGGAGGAGGA) (GGA 12-mer), present unique structural challenges.
Previous methods lacked the precision to unambiguously differentiate these bond types in complex structures.

Purpose of the Study:

To develop a direct and unambiguous method for discriminating intra- and intermolecular hydrogen bonds in symmetric DNA multimers.
To elucidate the multimeric architecture and hydrogen bonding patterns of the GGA 12-mer.
To investigate the stability of G:G and G:A base pairs within the GGA 12-mer heptad and its application in functional DNA.

Main Methods:

Development of a novel spectroscopic method for hydrogen bond discrimination.
Application of the method to a symmetric dimer of d(GGAGGAGGAGGA) (GGA 12-mer).
Determination of scalar couplings across hydrogen bonds for G:G and G:A base pairs in the G(:A):G(:A):G(:A):G heptad.

Main Results:

The new method successfully differentiated intra- and intermolecular hydrogen bonds in the GGA 12-mer.
Decisive information on the multimeric architecture of the GGA 12-mer was obtained.
Scalar coupling values provided insights into the stability of G:G and G:A base pairs within the heptad.
The unique structural features of the GGA 12-mer were leveraged to regulate functional DNA activity.

Conclusions:

The developed method offers a direct and unambiguous approach to analyzing hydrogen bonding in DNA multimers.
The study provides a detailed understanding of the GGA 12-mer's structure, stability, and base pairing.
The GGA 12-mer's structural properties can be exploited for controlling the activity of functional DNA, opening avenues for novel biotechnological applications.