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Related Concept Videos

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...
Nucleic Acids and Nucleotides01:20

Nucleic Acids and Nucleotides

Nucleic acids are the most important macromolecules for the continuity of life. They carry the cell's genetic blueprint and have instructions for its functioning. The two main types of nucleic acids are deoxyribonucleic acid (DNA) and ribonucleic acid (RNA).
Deoxyribonucleic Acid (DNA)
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 the organelles such as chloroplasts and mitochondria. In...
Single-Strand DNA Binding Proteins01:03

Single-Strand DNA Binding Proteins

For successful DNA replication, the unwinding of double-stranded DNA must be accompanied by stabilization and protection of the separated single strands of the DNA. This crucial task is performed by single-strand DNA-binding (SSB) proteins. They bind to the DNA in a sequence-independent manner, which means that the nitrogenous bases of the DNA need not be present in a specific order for binding of SSB proteins to it. The binding of SSB proteins straightens single-stranded DNA (ssDNA) and makes...
The DNA Helix01:16

The DNA Helix

Overview
The DNA Helix01:07

The DNA Helix

Deoxyribonucleic acid, or DNA, is the genetic material responsible for passing traits from generation to generation in all organisms and most viruses. DNA is composed of two strands of nucleotides that wind around each other to form a spring-like structure called a double helix. However, the double helix is not perfectly symmetrical. Instead, there are regularly occurring grooves in the structure. The major groove occurs where the sugar-phosphate backbones are relatively far apart. This space...
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,

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Analyzing and Building Nucleic Acid Structures with 3DNA
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Published on: April 26, 2013

DiProDB: a database for dinucleotide properties.

Maik Friedel1, Swetlana Nikolajewa, Jürgen Sühnel

  • 1Biocomputing Group, Leibniz Institute for Age Research - Fritz Lipmann Institute, Beutenbergstrasse 11, 07745 Jena, Germany.

Nucleic Acids Research
|September 23, 2008
PubMed
Summary
This summary is machine-generated.

DiProDB is a new database for dinucleotide properties in DNA and RNA. This resource aids in understanding nucleic acid structure, function, and sequence encoding.

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Last Updated: Jun 30, 2026

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Area of Science:

  • Biochemistry
  • Bioinformatics
  • Structural Biology

Background:

  • Dinucleotide properties are crucial for understanding nucleic acid structure and function.
  • Existing data on these properties are fragmented and difficult to access.
  • These properties play a role in sequence encoding and regulatory mechanisms.

Purpose of the Study:

  • To create a centralized database (DiProDB) for conformational and thermodynamic dinucleotide properties.
  • To facilitate the application of dinucleotide property data in various research areas.
  • To provide tools for analyzing correlations within property datasets.

Main Methods:

  • Compilation of existing datasets for DNA and RNA, including single and double strands.
  • Development of a web-accessible database (http://diprodb.fli-leibniz.de).
  • Implementation of a correlation analysis facility for property datasets.

Main Results:

  • DiProDB provides comprehensive data on dinucleotide properties for DNA and RNA.
  • The database includes datasets for single and double strands.
  • A correlation analysis tool is integrated to manage interdependencies within property data.

Conclusions:

  • DiProDB serves as a valuable resource for researchers studying nucleic acid structure and function.
  • The database supports applications in sequence encoding and analysis.
  • It encourages data submission to expand the collective knowledge on dinucleotide properties.