Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Molecular Shape and Polarity03:37

Molecular Shape and Polarity

74.9K
Dipole Moment of a Molecule
74.9K
VSEPR Theory and the Basic Shapes02:52

VSEPR Theory and the Basic Shapes

84.3K
Overview of VSEPR Theory
84.3K
Molecular Shapes01:18

Molecular Shapes

61.6K
Molecules have characteristic shapes that are crucial for their function. The arrangement of various electron groups around the central atom dictates their molecular geometry. Electron pairs in the valence shell of a central atom will adopt an arrangement that minimizes repulsions between the electron pairs by maximizing the distance between them. The valence electrons form either bonding pairs, located primarily between bonded atoms, or lone pairs.
Two regions of electron density in a diatomic...
61.6K
RNA Stability01:53

RNA Stability

35.7K
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...
35.7K
RNA Structure01:23

RNA Structure

78.9K
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...
78.9K
Molecules and Compounds02:38

Molecules and Compounds

68.4K
Atoms and Molecules
68.4K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Project BETTER: Outcomes at the pregnancy-to-postpartum transition from a pilot clinical trial of a technology-delivered intervention for birthing people receiving medication for opioid use disorder.

Families, systems & health : the journal of collaborative family healthcare·2026
Same author

Asymptomatic Screening for Neisseria gonorrhoeae Among Gay and Bisexual Men Attending Public Sexual Health Services in Australia and Associations With Patterns of Ceftriaxone Consumption: A Retrospective Observational Study.

The Journal of infectious diseases·2026
Same author

Evaluating ChatGPT-4o's accuracy in answering American Board of Dermatology practice questions: an analysis of AI in dermatology residency education.

Dermatology online journal·2025
Same author

Feasibility trial of a technology-delivered intervention for opioid use disorder recovery postpartum.

Journal of child & adolescent substance abuse·2025
Same author

In vivo detection of antisense HIV-1 transcripts in untreated and ART-treated individuals.

Life science alliance·2025
Same author

The Problem With 'Gillick'.

Emergency medicine Australasia : EMA·2025
Same journal

EC-isHCR: A rapid method for in situ hybridization chain reaction in diverse animal samples.

Methods (San Diego, Calif.)·2026
Same journal

Single-Molecule methods to investigate mechanisms of transcription by RNA polymerase of Mycobacterium tuberculosis.

Methods (San Diego, Calif.)·2026
Same journal

Detection and sequencing of Usutu virus during mosquito surveillance: Use of multiple assays and techniques for identification at low levels.

Methods (San Diego, Calif.)·2026
Same journal

Experimental validation of an AI-driven digital healthcare platform for oral health behavior and plaque assessment among vietnamese children.

Methods (San Diego, Calif.)·2026
Same journal

Zeta potential: An efficient and cost-effective alternative for investigating cell-surface interactions.

Methods (San Diego, Calif.)·2026
Same journal

An automated workflow for quantifying the formation of synuclein aggregates in human dopaminergic neurons.

Methods (San Diego, Calif.)·2026
See all related articles

Related Experiment Video

Updated: Jan 26, 2026

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen
11:32

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen

Published on: May 24, 2017

12.6K

Using SHAPE-MaP to probe small molecule-RNA interactions.

Sarah Martin1, Carson Blankenship1, Jason W Rausch2

  • 1Department of Biological Sciences, Auburn University, 120 W. Samford Ave, Rouse Life Sciences Building, Auburn, AL 36849, United States.

Methods (San Diego, Calif.)
|April 23, 2019
PubMed
Summary
This summary is machine-generated.

Selective 2'-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) allows researchers to study RNA structure and small molecule binding. This method is crucial for developing new RNA-based therapeutics and advancing drug discovery.

Keywords:
In cellulo SHAPE-MaPLigandRNA structure and functionSmall moleculeZones

More Related Videos

iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution
10:45

iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution

Published on: April 30, 2011

59.3K
Nanomanipulation of Single RNA Molecules by Optical Tweezers
06:59

Nanomanipulation of Single RNA Molecules by Optical Tweezers

Published on: August 20, 2014

15.4K

Related Experiment Videos

Last Updated: Jan 26, 2026

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen
11:32

Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen

Published on: May 24, 2017

12.6K
iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution
10:45

iCLIP - Transcriptome-wide Mapping of Protein-RNA Interactions with Individual Nucleotide Resolution

Published on: April 30, 2011

59.3K
Nanomanipulation of Single RNA Molecules by Optical Tweezers
06:59

Nanomanipulation of Single RNA Molecules by Optical Tweezers

Published on: August 20, 2014

15.4K

Area of Science:

  • Molecular Biology
  • Drug Discovery
  • Biochemistry

Background:

  • RNA plays critical roles in cellular processes, acting as both a regulator and catalyst.
  • RNA's complex structure presents challenges for therapeutic drug design.
  • Identifying druggable RNA motifs with high-affinity binding sites is essential for RNA-based therapeutics.

Purpose of the Study:

  • To present a detailed protocol for utilizing SHAPE-MaP to investigate RNA-small molecule interactions within cell cultures (in cellulo).
  • To highlight the utility of SHAPE-MaP as a versatile tool for RNA drug discovery.

Main Methods:

  • Selective 2 -hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) is employed to probe RNA secondary structure.
  • The method achieves single-nucleotide resolution and can be applied under diverse experimental conditions.
  • SHAPE-MaP is used in the presence of RNA-specific small-molecule ligands to characterize binding interactions.

Main Results:

  • SHAPE-MaP accurately determines RNA secondary structure at single-nucleotide resolution.
  • The protocol enables the characterization of RNA-small molecule interactions in cellulo.
  • The method can identify binding sites and affinities for small molecules interacting with RNA transcripts.

Conclusions:

  • SHAPE-MaP is an essential tool for characterizing RNA structure and small molecule binding.
  • This method supports the effective design of RNA-based therapeutics by identifying druggable sites.
  • The versatility of SHAPE-MaP makes it invaluable for advancing RNA drug discovery efforts.