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 Experiment Videos

Using nucleotide analogs to probe protein-RNA interactions.

M Elliott1, P Gottlieb, P Gollnick

  • 1Department of Biological Sciences, State University of New York at Buffalo, Buffalo, New York 14260, USA.

Methods (San Diego, Calif.)
|March 13, 2001
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

Gabapentin use in the neonatal intensive care unit and beyond: Single center report of 104 cases.

Journal of neonatal-perinatal medicine·2023
Same author

Methodology optimization to quantify microplastic presence in planktonic copepods, chaetognaths and fish larvae.

MethodsX·2023
Same author

Multidisciplinary staff perceived barriers and enablers to early mobilization of patients with burns in the ICU.

Burns : journal of the International Society for Burn Injuries·2023
Same author

Cannabinoid receptor type 2 is upregulated in synovium following joint injury and mediates anti-inflammatory effects in synovial fibroblasts and macrophages.

Osteoarthritis and cartilage·2021
Same author

Effect of dexmedetomidine on heart rate in neonates with hypoxic ischemic encephalopathy undergoing therapeutic hypothermia.

Journal of neonatal-perinatal medicine·2021
Same author

Expanding arts therapies provision: a pilot project in Older Adult Mental Health Services, Aneurin Bevan University Health Board.

Public health·2021
Same journal

Quantitative single-cell analysis of PML-RARα oncogene-induced DNA damage along cell cycle progression.

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

Cilia SubQ: a modular suite of semi- and fully automated pipelines for analysis of primary cilia and ciliary subdomains.

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

Projective invariant of surface ratio: application to pupil measurement through simulations and proof-of-concept recordings.

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

A quantitative radiographic framework for longitudinal monitoring of additively manufactured biodegradable scaffolds with graded tantalum reinforcement.

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

An accessible, absorbance-based plate reader assay to assess cumulative exposure of blood plasma & serum to thawed conditions.

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

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

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

Synthetic nucleotide analogs reveal direct protein-RNA interactions. This method accurately identifies functional groups involved in binding and can uncover indirect structural effects on complex stability.

Area of Science:

  • Biochemistry
  • Molecular Biology
  • Structural Biology

Background:

  • Protein-RNA complexes are crucial for cellular functions.
  • Understanding specific functional group interactions is key to deciphering complex stability.
  • Synthetic nucleotide analogs offer a method to probe these interactions.

Purpose of the Study:

  • To develop and apply protocols for incorporating nucleotide analogs into RNA.
  • To investigate the functional group importance in protein-RNA interactions using these analogs.
  • To study the interaction between the TRAP protein and its cognate RNA.

Main Methods:

  • In vitro transcription using T7 RNA polymerase for analog incorporation.
  • Synthetic chemistry approaches for nucleotide analog synthesis and incorporation.

Related Experiment Videos

  • Thermodynamic stability assays of protein-RNA complexes with analogs.
  • Comparison of analog data with crystal structures of protein-RNA complexes.

    • Main Results:

    • Nucleotide analogs successfully identified functional groups directly interacting with the TRAP protein.
    • The method accurately pinpointed RNA residues that do not contact the protein.
    • Analog studies revealed that modifications can indirectly affect RNA structural properties and complex stability.

    Conclusions:

    • Synthetic nucleotide analogs are effective tools for dissecting protein-RNA interactions.
    • This approach validates direct and indirect contributions of RNA functional groups to complex stability.
    • The findings provide insights into the specific binding of the TRAP protein to its RNA targets.