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Related Concept Videos

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.
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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.
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Single-Strand DNA Binding Proteins01:03

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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...
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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.
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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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An Assay for Quantifying Protein-RNA Binding in Bacteria
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Interplay between single-stranded binding proteins on RNA secondary structure.

Yi-Hsuan Lin1, Ralf Bundschuh2

  • 1Department of Physics, The Ohio State University, 191 West Woodruff Avenue, Columbus, Ohio 43210-1107, USA.

Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics
|December 17, 2013
PubMed
Summary
This summary is machine-generated.

RNA-protein interactions enable gene regulation logic. This study reveals RNA secondary structures drive interdependencies between binding sites, enabling combinatorial gene control.

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Area of Science:

  • Molecular Biology
  • Biophysics
  • Systems Biology

Background:

  • RNA-protein interactions are crucial for regulating RNA fate and gene expression.
  • Interdependencies between RNA-binding events can implement logical functions in gene regulation.

Purpose of the Study:

  • To investigate the interplay between RNA-binding partners.
  • To explore this interplay within the framework of RNA secondary structure statistical physics.
  • To quantify the interdependency of binding events.

Main Methods:

  • Defined a linear correlation function to measure the interdependency of RNA-binding partner interactions.
  • Analyzed the behavior of this correlation function in the context of RNA secondary structure.

Main Results:

  • Demonstrated the emergence of a long-range power-law behavior in the linear correlation function.
  • This behavior indicates a significant interdependency between binding sites.

Conclusions:

  • RNA secondary structure plays a key role in mediating interdependencies between RNA-binding sites.
  • This mechanism provides a general framework for combinatorial post-transcriptional gene regulation.