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Molecular Modeling of Non-Canonical Intramolecular RNA Triple Helix Structures Predicted from TRIPinRNA and Their In
Isha Rakheja1, Gayatri Panda1, Souvik Maiti2,3,4
1Department of Computational Biology, Indraprastha Institute of Information Technology Delhi (IIIT-Delhi), Okhla Industrial Estate, Phase III, New Delhi 110020, India.
The Journal of Physical Chemistry. B
|April 28, 2025
Summary
This study confirms the stability of non-canonical RNA triple helices in the human genome. These structures, found in long non-coding RNA genes, may play dynamic roles in cellular processes.
Area of Science:
- Molecular Biology
- Genomics
- Biophysics
Background:
- Traditional RNA triple helices involve pyrimidine-type U·A-U or C·G-C triplets.
- Non-canonical triplets in riboswitches and introns suggest their potential presence in the human genome.
Purpose of the Study:
- Investigate the stability and formation of a chimeric RNA triple helix from the FLRT2-AS1 lncRNA.
- Explore the potential biological functions of non-canonical RNA triple helices.
Main Methods:
- Molecular modeling and 500 ns simulation of a chimeric triple helix.
- In vitro biophysical analyses to confirm triplex formation.
Main Results:
- The chimeric triple helix derived from FLRT2-AS1 lncRNA demonstrated stability over the simulation period.
- Biophysical analyses supported the in vitro formation of this non-canonical triplex.
- These structures show less thermal stability than canonical U·A-U triplets.
Conclusions:
- Non-canonical RNA triple helices can form and are stable within human long non-coding RNA genes.
- These structures may have distinct, dynamic, and temporal roles in cellular biology.
- Further investigation into the biological functions of these intriguing triple helices is warranted.
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