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Related Concept Videos

RNA Structure01:23

RNA Structure

78.6K
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...
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RNA Structure01:19

RNA Structure

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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...
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Nucleic Acid Structure01:25

Nucleic Acid Structure

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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
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RNA Stability01:53

RNA Stability

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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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Nucleic acids02:43

Nucleic acids

187.9K
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,...
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Nucleic Acids02:43

Nucleic Acids

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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,...
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Related Experiment Videos

Efficient RNA pairwise structure comparison by SETTER method.

David Hoksza1, Daniel Svozil

  • 1SIRET Research Group, Department of Software Engineering, FMP, Charles University in Prague, 11800 Czech Republic. hoksza@ksi.mff.cuni.cz

Bioinformatics (Oxford, England)
|May 22, 2012
PubMed
Summary
This summary is machine-generated.

A new algorithm, SETTER (SEcondary sTructure-based TERtiary Structure Similarity Algorithm), accurately and rapidly compares large RNA 3D structures. This tool aids in structural alignment, similarity searches, and functional annotation for RNA molecules.

Related Experiment Videos

Area of Science:

  • Structural Biology
  • Bioinformatics
  • Computational Biology

Background:

  • Analyzing RNA 3D structures is crucial for understanding molecular architecture and function.
  • Current methods struggle with the computational demands of large RNA structures.
  • The increasing number of large RNAs in databases necessitates efficient analysis tools.

Purpose of the Study:

  • To introduce a novel, fast, and accurate algorithm for RNA 3D structure comparison.
  • To enable efficient structural alignment and similarity searches for RNA molecules of any size.
  • To facilitate functional annotation of RNA structures.

Main Methods:

  • Developed SETTER (SEcondary sTructure-based TERtiary Structure Similarity Algorithm).
  • Employs pairwise comparison based on 3D similarity of generalized secondary structure units.
  • Generates distance scores and statistical significance for structural comparisons.

Main Results:

  • SETTER accurately and rapidly compares RNA 3D structures, regardless of size.
  • The algorithm provides distance scores and statistical significance for pairwise comparisons.
  • Demonstrated utility for both homologous structure alignment and database similarity searches.

Conclusions:

  • SETTER offers an efficient solution for analyzing and comparing large RNA 3D structures.
  • The algorithm supports structural alignment, similarity searches, and functional annotation.
  • SETTER is freely available, promoting broader research accessibility.