期刊
BIOINFORMATICS
卷 38, 期 17, 页码 4200-4205出版社
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btac484
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资金
- Mloda Kadra grant for young researchers from Poznan University of Technology [0311/SBAD/0705]
- National Science Center, Poland [2019/35/B/ST6/03074]
- Institute of Bioorganic Chemistry, PAS
Studying the 3D structure of RNA is crucial for understanding its functions and developing therapeutic solutions. However, computational modeling of multi-branched loops has been a weak point in structural bioinformatics. The RNAloops database collects and analyzes these loops, providing search, analysis, and data statistics functionalities.
Motivation: Knowledge of the 3D structure of RNA supports discovering its functions and is crucial for designing drugs and modern therapeutic solutions. Thus, much attention is devoted to experimental determination and computational prediction targeting the global fold of RNA and its local substructures. The latter include multi-branched loops-functionally significant elements that highly affect the spatial shape of the entire molecule. Unfortunately, their computational modeling constitutes a weak point of structural bioinformatics. A remedy for this is in collecting these motifs and analyzing their features. Results: RNAloops is a self-updating database that stores multi-branched loops identified in the PDB-deposited RNA structures. A description of each loop includes angular data-planar and Euler angles computed between pairs of adjacent helices to allow studying their mutual arrangement in space. The system enables search and analysis of multiloops, presents their structure details numerically and visually, and computes data statistics.
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