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Related Concept Videos

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...
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 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...
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...
Bacterial RNA Polymerase00:43

Bacterial RNA Polymerase

Unlike eukaryotes, bacteria use a single RNA Polymerase (RNAP) to transcribe all genes. The different subunits of bacterial RNAPhave distinct functions. The multisubunit structure of the bacterial RNAP helps the enzyme to maintain catalytic function, facilitate assembly, interact with DNA and RNA, and self-regulate its activity.
In most genes, the transcription site is a single base present upstream of the coding sequence. Though RNAP is a catalytically efficient enzyme, it does not recognize...

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Related Experiment Video

Updated: May 20, 2026

RNA Secondary Structure Prediction Using High-throughput SHAPE
13:42

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

Bayesian sampling of evolutionarily conserved RNA secondary structures with pseudoknots.

Gero Doose1, Dirk Metzler

  • 1Department of Biology, LMU Biocenter, Ludwig-Maximilians-Universität München, Planegg-Martinsried, Germany. gero@bioinf.uni-leipzig.de

Bioinformatics (Oxford, England)
|July 17, 2012
PubMed
Summary

This study introduces a novel computational method for predicting RNA secondary structures, incorporating evolutionary history and pseudoknots. The approach accurately samples consensus structures based on approximate posterior probability, outperforming existing methods.

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Area of Science:

  • Computational Biology
  • Bioinformatics
  • Molecular Biology

Background:

  • Non-coding RNAs play crucial roles in biological processes.
  • RNA functionality depends on conserved structural motifs.
  • Existing prediction tools often ignore pseudoknots and uncertainty.

Purpose of the Study:

  • To develop a method for predicting RNA secondary structures using evolutionary history.
  • To incorporate pseudoknots into structure prediction.
  • To provide uncertainty information for predicted structures.

Main Methods:

  • Utilizes evolutionary history of aligned RNA sequences.
  • Samples consensus secondary structures, including pseudoknots.
  • Assigns approximate posterior probabilities to sampled structures.

Main Results:

  • Demonstrates the benefit of incorporating evolutionary history.
  • Achieves competitive performance compared to existing methods.
  • Validated using RNase P RNA sequences and simulated data.

Conclusions:

  • The novel method enhances RNA secondary structure prediction accuracy.
  • Incorporating evolutionary information and pseudoknots is beneficial.
  • PhyloQFold provides a robust tool for RNA structure analysis.