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

Ribosome Profiling02:24

Ribosome Profiling

4.0K
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...
4.0K
Protein Networks02:26

Protein Networks

4.4K
An organism can have thousands of different proteins, and these proteins must cooperate to ensure the health of an organism. Proteins bind to other proteins and form complexes to carry out their functions. Many proteins interact with multiple other proteins creating a complex network of protein interactions.
These interactions can be represented through maps depicting protein-protein interaction networks, represented as nodes and edges. Nodes are circles that are representative of a protein,...
4.4K
Protein-protein Interfaces02:04

Protein-protein Interfaces

14.3K
Many proteins form complexes to carry out their functions, making protein-protein interactions (PPIs) essential for an organism's survival. Most PPIs are stabilized by numerous weak noncovalent chemical forces. The physical shape of the interfaces determines the way two proteins interact. Many globular proteins have closely-matching shapes on their surfaces, which form a large number of weak bonds. Additionally, many PPIs occur between two helices or between a surface cleft and a...
14.3K
Riboswitches01:56

Riboswitches

9.3K
Riboswitches are non-coding mRNA domains that regulate the transcription and translation of downstream genes without the help of proteins. Riboswitches bind directly to a metabolite and can form unique stem-loop or hairpin structures in response to the amount of the metabolite present. They have two distinct regions – a metabolite-binding aptamer and an expression platform.
The aptamer has high specificity for a particular metabolite which allows riboswitches to specifically regulate...
9.3K
Proteomics01:33

Proteomics

9.0K
A proteome is the entire set of proteins that a cell type produces. We can study proteomes using the knowledge of genomes because genes code for mRNAs, and the mRNAs encode proteins. Although mRNA analysis is a step in the right direction, not all mRNAs are translated into proteins.
Proteomics is the study of proteomes' function. It involves the large-scale systematic study of the proteome to denote the protein complement expressed by a genome. Scientist Mark Wilkins coined the term...
9.0K
Ribozymes02:47

Ribozymes

13.1K
The term ribozyme is used for RNA that can act as an enzyme. Ribozymes are mainly found in selected viruses, bacteria, plant organelles, and lower eukaryotes. Ribozymes were first discovered in 1982 when Tom Cech’s laboratory observed Group I introns acting as enzymes. This was shortly followed by the discovery of another ribozyme, Ribonulcease P, by Sid Altman’s laboratory. Both Cech and Altman received the Nobel Prize in chemistry in 1989 for their work on ribozymes.
Ribozymes can...
13.1K

You might also read

Related Articles

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

Sort by
Same author

Disrupting autorepression circuitry generates ''open-loop lethality'' to yield escape-resistant antiviral agents.

Cell·2023
Same author

Modulation of Capsid Dynamics in Bromoviruses by the Host and Heterologous Viral Replicase.

Journal of virology·2023
Same author

A single-administration therapeutic interfering particle reduces SARS-CoV-2 viral shedding and pathogenesis in hamsters.

Proceedings of the National Academy of Sciences of the United States of America·2022
Same author

A single-administration therapeutic interfering particle reduces SARS-CoV-2 viral shedding and pathogenesis in hamsters.

bioRxiv : the preprint server for biology·2022
Same author

Disrupting autorepression circuitry generates "open-loop lethality" to yield escape-resistant antiviral agents.

Cell·2022
Same author

Identification of a therapeutic interfering particle-A single-dose SARS-CoV-2 antiviral intervention with a high barrier to resistance.

Cell·2021

Related Experiment Video

Updated: Dec 11, 2025

Method for the Isolation and Identification of mRNAs, microRNAs and Protein Components of Ribonucleoprotein Complexes from Cell Extracts using RIP-Chip
13:34

Method for the Isolation and Identification of mRNAs, microRNAs and Protein Components of Ribonucleoprotein Complexes from Cell Extracts using RIP-Chip

Published on: September 29, 2012

28.0K

Studying RNA-Protein Interaction Using Riboproteomics.

Sonali Chaturvedi1, A L N Rao2

  • 1Gladstone Institute of Virology and Immunology, Gladstone Institutes, San Francisco, CA, USA.

Methods in Molecular Biology (Clifton, N.J.)
|August 16, 2020
PubMed
Summary

Researchers developed a riboproteomics protocol to identify host proteins interacting with RNA. This method uses a satellite RNA from Cucumber mosaic virus and is applicable to various organisms.

Keywords:
Cucumber mosaic virusLC-MS/MSLong noncoding RNAProteomicsRNA virusesRiboproteomicsSatellite-RNA

More Related Videos

Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions
10:52

Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions

Published on: September 28, 2017

8.4K
An Optimized Quantitative Pull-Down Analysis of RNA-Binding Proteins Using Short Biotinylated RNA
07:55

An Optimized Quantitative Pull-Down Analysis of RNA-Binding Proteins Using Short Biotinylated RNA

Published on: February 17, 2023

4.9K

Related Experiment Videos

Last Updated: Dec 11, 2025

Method for the Isolation and Identification of mRNAs, microRNAs and Protein Components of Ribonucleoprotein Complexes from Cell Extracts using RIP-Chip
13:34

Method for the Isolation and Identification of mRNAs, microRNAs and Protein Components of Ribonucleoprotein Complexes from Cell Extracts using RIP-Chip

Published on: September 29, 2012

28.0K
Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions
10:52

Sample Preparation for Mass Spectrometry-based Identification of RNA-binding Regions

Published on: September 28, 2017

8.4K
An Optimized Quantitative Pull-Down Analysis of RNA-Binding Proteins Using Short Biotinylated RNA
07:55

An Optimized Quantitative Pull-Down Analysis of RNA-Binding Proteins Using Short Biotinylated RNA

Published on: February 17, 2023

4.9K

Area of Science:

  • Molecular Biology
  • Proteomics
  • Bioinformatics

Background:

  • Protein-protein interactions (PPI) regulate cellular functions.
  • RNA-protein interactions are crucial for gene expression.
  • Current methods for RNA-protein interaction characterization are limited.

Purpose of the Study:

  • To develop a stepwise protocol for identifying host proteomes interacting with RNA.
  • To characterize RNA-protein interactions using riboproteomics.
  • To investigate the role of long noncoding RNAs (lnc-RNAs) in plant biology.

Main Methods:

  • In vitro transcription of RNA.
  • Preparation of RNA affinity column.
  • Co-immunoprecipitation (Co-IP) and Liquid Chromatography-Mass Spectrometry/Mass Spectrometry (LC-MS/MS).

Main Results:

  • A detailed protocol for identifying RNA-interacting proteins was established.
  • The protocol was validated using a plant pathogenic satellite RNA (Sat-RNA) from Cucumber mosaic virus (CMV).
  • The method successfully identified host proteomes interacting with the Sat-RNA.

Conclusions:

  • The described riboproteomics approach is a valuable tool for studying RNA-protein interactions.
  • This protocol is applicable to a wide range of RNAs in eukaryotic and prokaryotic organisms.
  • It facilitates the characterization of host proteomes interacting with specific RNAs, including lnc-RNAs.