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Related Concept Videos

Nucleic acids02:43

Nucleic acids

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, the...
Nucleic Acids02:43

Nucleic Acids

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, the...
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...
DNA Base Pairing02:27

DNA Base Pairing

Erwin Chargaff’s rules on DNA equivalence paved the way for the discovery of base pairing in DNA. Chargaff’s rules state that in a double-stranded DNA molecule,
DNA Base Pairing02:27

DNA Base Pairing

Erwin Chargaff’s rules on DNA equivalence paved the way for the discovery of base pairing in DNA. Chargaff’s rules state that in a double-stranded DNA molecule,
Transfer RNA Synthesis02:36

Transfer RNA Synthesis

One of the unique features of tRNA is the presence of modified bases. In some tRNAs, modified bases account for nearly 20% of the total bases in the molecule. Altogether, these unusual bases protect the tRNA from enzymatic degradation by RNases.
Each of these chemical modifications is carried by a specific enzyme, post-transcription. All of these enzymes have unique base and site-specificity. Methylation, the most common chemical modification, is carried by at least nine different enzymes, with...

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Analyzing and Building Nucleic Acid Structures with 3DNA
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Analyzing and Building Nucleic Acid Structures with 3DNA

Published on: April 26, 2013

BPS: a database of RNA base-pair structures.

Yurong Xin1, Wilma K Olson

  • 1Rutgers, State University of New Jersey, Department of Chemistry & Chemical Biology, BioMaPS Institute for Quantitative Biology, Wright-Rieman Laboratories, 610 Taylor Road, Piscataway, NJ 08854, USA.

Nucleic Acids Research
|October 11, 2008
PubMed
Summary
This summary is machine-generated.

The RNA base-pair structure database (BPS) annotates RNA structural features and interactions. It offers a user-friendly interface to search and browse Watson-Crick, non-Watson-Crick, and isosteric base pairs.

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Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids
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Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids

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RNA Secondary Structure Prediction Using High-throughput SHAPE
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RNA Secondary Structure Prediction Using High-throughput SHAPE

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Related Experiment Videos

Last Updated: Jun 29, 2026

Analyzing and Building Nucleic Acid Structures with 3DNA
16:24

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Published on: April 26, 2013

Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids
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Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids

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

RNA Secondary Structure Prediction Using High-throughput SHAPE

Published on: May 31, 2013

Area of Science:

  • Structural Biology
  • Bioinformatics
  • Molecular Biology

Background:

  • RNA base-pair structures are fundamental to RNA function.
  • Understanding noncanonical base pairs and higher-order interactions is crucial for RNA research.
  • Databases are essential for organizing and accessing complex structural data.

Purpose of the Study:

  • To present the RNA base-pair structure database (BPS).
  • To describe the functions of BPS in annotating RNA structural and chemical features.
  • To provide a searchable interface for RNA base pairs and interactions.

Main Methods:

  • Compilation of data from 426 RNA crystal structures.
  • Annotation of Watson-Crick, non-Watson-Crick, and isosteric base pairs.
  • Development of search functionalities based on patterns, IDs, and structural types.

Main Results:

  • The BPS contains 91,265 base pairs (bp) and 3386 higher-order interactions.
  • Over 61,819 bp are classified into 17 distinct isosteric classes.
  • An integrated Atlas provides representative images and statistical information.

Conclusions:

  • The BPS serves as a comprehensive resource for RNA base-pair structures and interactions.
  • The database facilitates the study of structural and chemical features of RNA.
  • BPS offers valuable tools for researchers investigating RNA molecular structures.