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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 Structure01:23

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...
Ribosome Profiling02:24

Ribosome Profiling

Ribosome profiling or ribo-sequencing is a deep sequencing technique that produces a snapshot of active translation in a cell. It selectively sequences the mRNAs protected by ribosomes to get an insight into a cell’s translation landscape at any given point in time.
Applications of ribosome profiling
Ribosome profiling has many applications, including in vivo monitoring of translation inside a particular organ or tissue type and quantifying new protein synthesis levels.
The technique helps...
Maxam-Gilbert Sequencing01:05

Maxam-Gilbert Sequencing

In the same year as the discovery of the Sanger sequencing method, another group of scientists, Allan Maxam and Walter Gilbert, demonstrated their chemical-cleavage method for DNA sequencing. The Maxam-Gilbert method relies on using different chemicals that can cleave the DNA sequence at specific sites, the separation of resulting DNA fragments of variable size using electrophoresis, and deciphering the DNA sequence from the resulting gel bands.
Challenges of the Maxam-Gilbert Method
The...

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Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
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Probing RNA structure by lead cleavage.

T Pan1

  • 1University of Chicago, Chicago, Illinois, USA.

Current Protocols in Nucleic Acid Chemistry
|April 23, 2008
PubMed
Summary
This summary is machine-generated.

Lead ions catalyze RNA backbone cleavage via transesterification. This reaction

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Last Updated: Jul 5, 2026

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10:34

Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells

Published on: December 9, 2022

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

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Fluorescence Based Primer Extension Technique to Determine Transcriptional Starting Points and Cleavage Sites of RNases In Vivo
10:51

Fluorescence Based Primer Extension Technique to Determine Transcriptional Starting Points and Cleavage Sites of RNases In Vivo

Published on: October 31, 2014

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Structural Biology

Background:

  • RNA's phosphodiester backbone is susceptible to cleavage.
  • The 2'-hydroxyl group's accessibility influences cleavage efficiency.
  • Lead ions can bind to RNA structures.

Purpose of the Study:

  • To investigate lead-induced RNA cleavage as a structural probe.
  • To explore the relationship between RNA tertiary structure and cleavage site accessibility.

Main Methods:

  • Utilizing lead (Pb2+) ions to induce site-specific RNA cleavage.
  • Analyzing cleavage products to infer nucleotide accessibility and RNA structure.

Main Results:

  • Lead cleavage reveals steric and chemical constraints on specific 2'-hydroxyl groups.
  • The reaction is sensitive to the formation of Pb(2+)-binding sites within tertiary RNA structures.

Conclusions:

  • Lead-induced transesterification is a valuable tool for probing RNA tertiary structure.
  • This method can map nucleotide accessibility and identify structural features in RNA molecules.