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R-SIM: A Database of Binding Affinities for RNA-small Molecule Interactions
Sowmya Ramaswamy Krishnan1, Arijit Roy2, M Michael Gromiha3
1Department of Biotechnology, Bhupat and Jyoti Mehta School of Biosciences, Indian Institute of Technology Madras, Chennai 600036, India; TCS Research (Life Sciences division), Tata Consultancy Services, Hyderabad 500081, India.
Journal of Molecular Biology
|December 10, 2022
Summary
Researchers developed R-SIM, a database of RNA-small molecule interactions. This resource aids in designing new RNA-targeting drugs by providing binding affinity data and structural information for drug development.
Area of Science:
- Biochemistry
- Molecular Biology
- Drug Discovery
Background:
- Ribonucleic acids (RNAs) play vital roles in cellular functions and are implicated in diseases like cancer and infections.
- Targeting RNA offers a promising avenue for drug development, expanding the scope beyond traditional protein targets.
- Accurate binding affinity data for RNA-small molecule interactions is crucial for designing effective therapeutics.
Purpose of the Study:
- To curate a comprehensive database of experimentally validated RNA-small molecule interactions.
- To facilitate the design and development of novel RNA-targeted small molecule therapeutics.
- To provide a user-friendly platform for accessing and analyzing RNA-interaction data.
Main Methods:
- Compilation of experimentally validated RNA-small molecule interaction data.
- Inclusion of RNA sequence, structure, small molecule properties, and binding affinity values.
- Development of a web interface for data search, visualization, and download.
Main Results:
- Creation of the RNA-Small molecule Interaction Miner (R-SIM) database.
- R-SIM contains detailed information on RNA targets, small molecules, binding affinities, and complex structures.
- A user-friendly interface enables efficient data retrieval and analysis.
Conclusions:
- R-SIM serves as a valuable resource for researchers in RNA-targeted drug discovery.
- The database can accelerate the understanding of RNA-small molecule interactions.
- R-SIM supports the development of novel therapeutics for various diseases.
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