InterRNA: a database of base interactions in RNA structures

A major component of RNA structure stabilization are the hydrogen bonded interactions between the base residues. The importance and biological relevance for large clusters of base interactions can be much more easily investigated when their occurrences have been systematically detected, catalogued a...

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Bibliographic Details
Published in:Nucleic acids research 2016-01, Vol.44 (D1), p.D266-D271
Main Authors: Appasamy, Sri Devan, Hamdani, Hazrina Yusof, Ramlan, Effirul Ikhwan, Firdaus-Raih, Mohd
Format: Article
Language:English
Subjects:
Database Issue
Databases, Nucleic Acid
Hydrogen Bonding
Molecular Sequence Annotation
Nucleic Acid Conformation
RNA - chemistry
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Summary:A major component of RNA structure stabilization are the hydrogen bonded interactions between the base residues. The importance and biological relevance for large clusters of base interactions can be much more easily investigated when their occurrences have been systematically detected, catalogued and compared. In this paper, we describe the database InterRNA (INTERactions in RNA structures database-http://mfrlab.org/interrna/) that contains records of known RNA 3D motifs as well as records for clusters of bases that are interconnected by hydrogen bonds. The contents of the database were compiled from RNA structural annotations carried out by the NASSAM (http://mfrlab.org/grafss/nassam) and COGNAC (http://mfrlab.org/grafss/cognac) computer programs. An analysis of the database content and comparisons with the existing corpus of knowledge regarding RNA 3D motifs clearly show that InterRNA is able to provide an extension of the annotations for known motifs as well as able to provide novel interactions for further investigations.
ISSN:0305-1048
1362-4962
DOI:10.1093/nar/gkv1186