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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...
Protein Organization01:24

Protein Organization

Proteins are polymers of amino acid residues. They are versatile and responsible for different cellular functions, including DNA replication, molecular transport, catalysis, and structural support. Proteins have a hierarchical structure comprising at least three levels of organization: primary, secondary, and tertiary structure. Some large proteins have a quaternary structure where individual protein subunits are linked together.
The primary structure of a protein is its amino acid sequence.
Protein Organization01:13

Protein Organization

Overview

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A Protocol for Computer-Based Protein Structure and Function Prediction
16:41

A Protocol for Computer-Based Protein Structure and Function Prediction

Published on: November 3, 2011

RNA structure prediction.

Stephan H Bernhart1

  • 1Institute for Theoretical Chemistry, University of Vienna, Vienna, Austria. berni@tbi.univie.ac.at

Methods in Molecular Biology (Clifton, N.J.)
|July 23, 2011
PubMed
Summary
This summary is machine-generated.

Predicting RNA secondary structure is crucial for understanding novel non-coding RNAs (ncRNAs). This chapter reviews computational tools, highlighting the ViennaRNA package for diverse RNA structure predictions beyond static models.

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Last Updated: May 30, 2026

A Protocol for Computer-Based Protein Structure and Function Prediction
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RNA Secondary Structure Prediction Using High-throughput SHAPE
13:42

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Published on: May 31, 2013

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10:34

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Molecular Biology

Background:

  • Functional characterization of novel non-coding RNAs (ncRNAs) relies heavily on predicting their structure.
  • Numerous computational tools exist for RNA secondary structure prediction, varying in algorithms, models, and prediction targets.

Purpose of the Study:

  • To provide an overview of computational tools for RNA secondary structure prediction.
  • To introduce the ViennaRNA software package and web server.
  • To focus on algorithms that predict dynamic RNA structures, moving beyond static predictions.

Main Methods:

  • Review of existing RNA secondary structure prediction programs.
  • Introduction to the ViennaRNA software package and its web server implementation.
  • Discussion of algorithms that extend beyond static structure prediction.

Main Results:

  • A multitude of computational tools for RNA secondary structure prediction are available.
  • The ViennaRNA package offers a comprehensive solution for various RNA secondary structure prediction methods.
  • Algorithms capable of predicting dynamic RNA structures are increasingly important.

Conclusions:

  • Accurate RNA secondary structure prediction is a vital first step in ncRNA functional characterization.
  • The ViennaRNA software package provides a versatile platform for diverse RNA structure prediction tasks.
  • Focusing on dynamic structures offers deeper insights into RNA function.