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Related Concept Videos

RNA Structure01:23

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 Structure01:19

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 Structure01:23

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...
Nucleic Acid Structure01:25

Nucleic Acid Structure

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 has a double-helix structure. The...
RNA-seq03:21

RNA-seq

RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while microarray-based...
RNA Stability01:53

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...

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Related Experiment Video

Updated: Jun 15, 2026

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

Exploring RNA structure by integrative molecular modelling.

Benoît Masquida1, Bertrand Beckert, Fabrice Jossinet

  • 1Architecture et Réactivité de l'ARN, Université de Strasbourg, IBMC, CNRS, 15 rue René Descartes, Strasbourg, France. b.masquida@ibmc.u-strasbg.fr

New Biotechnology
|March 9, 2010
PubMed
Summary
This summary is machine-generated.

This study presents a pragmatic molecular modeling method for RNA structures. The approach uses recurrent structural motifs to build 3D models, proving effective for predicting RNA topology and architecture.

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Last Updated: Jun 15, 2026

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

Published on: December 9, 2022

RNA Secondary Structure Prediction Using High-throughput SHAPE
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Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen
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Published on: May 24, 2017

Area of Science:

  • Computational Biology
  • Structural Biology
  • Bioinformatics

Background:

  • Structured RNAs are key cellular regulators, with new types discovered annually.
  • Accurate and rapid RNA structure modeling is essential for understanding these regulators.
  • Existing methods face challenges in speed and reliability for complex RNA structures.

Purpose of the Study:

  • To introduce and validate a novel, pragmatic method for RNA molecular modeling.
  • To demonstrate the utility of identifying and assembling recurrent structural motifs for 3D RNA structure prediction.
  • To discuss the strengths, limitations, and future automation of this interactive modeling approach.

Main Methods:

  • Utilizes interactive all-atom molecular modeling based on recurrent RNA structural motifs.
  • Employs comparative sequence analysis and biochemical data to identify these motifs.
  • Extrudes identified motifs into 3D and assembles them manually in a bioinformatic process.

Main Results:

  • The method successfully predicts RNA topology and overall architecture.
  • Validation against crystal structures confirms the model's predictive power for global structure.
  • Accuracy in predicting specific base-base interactions is noted as a limitation.

Conclusions:

  • The interactive motif-based modeling approach is a powerful tool for RNA structure prediction.
  • The method offers a pragmatic solution for rapidly tackling the structure of newly discovered RNAs.
  • Further development towards automation is a key future direction for enhancing RNA modeling capabilities.