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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| Format: | Article |
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Oxford University Press
2016
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| author | Appasamy, S.D. Hamdani, H.Y. Ramlan, E.I. Firdaus-Raih, M. |
| author_facet | Appasamy, S.D. Hamdani, H.Y. Ramlan, E.I. Firdaus-Raih, M. |
| author_sort | Appasamy, S.D. |
| collection | UM |
| description | 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. |
| first_indexed | 2024-03-06T05:45:06Z |
| format | Article |
| id | um.eprints-18329 |
| institution | Universiti Malaya |
| last_indexed | 2024-03-06T05:45:06Z |
| publishDate | 2016 |
| publisher | Oxford University Press |
| record_format | dspace |
| spelling | um.eprints-183292017-11-21T02:42:05Z http://eprints.um.edu.my/18329/ InterRNA: A database of base interactions in RNA structures Appasamy, S.D. Hamdani, H.Y. Ramlan, E.I. Firdaus-Raih, M. QA75 Electronic computers. Computer science 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. Oxford University Press 2016 Article PeerReviewed Appasamy, S.D. and Hamdani, H.Y. and Ramlan, E.I. and Firdaus-Raih, M. (2016) InterRNA: A database of base interactions in RNA structures. Nucleic Acids Research, 44 (D1). D266-D271. ISSN 0305-1048, DOI https://doi.org/10.1093/nar/gkv1186 <https://doi.org/10.1093/nar/gkv1186>. https://doi.org/10.1093/nar/gkv1186 doi:10.1093/nar/gkv1186 |
| spellingShingle | QA75 Electronic computers. Computer science Appasamy, S.D. Hamdani, H.Y. Ramlan, E.I. Firdaus-Raih, M. InterRNA: A database of base interactions in RNA structures |
| title | InterRNA: A database of base interactions in RNA structures |
| title_full | InterRNA: A database of base interactions in RNA structures |
| title_fullStr | InterRNA: A database of base interactions in RNA structures |
| title_full_unstemmed | InterRNA: A database of base interactions in RNA structures |
| title_short | InterRNA: A database of base interactions in RNA structures |
| title_sort | interrna a database of base interactions in rna structures |
| topic | QA75 Electronic computers. Computer science |
| work_keys_str_mv | AT appasamysd interrnaadatabaseofbaseinteractionsinrnastructures AT hamdanihy interrnaadatabaseofbaseinteractionsinrnastructures AT ramlanei interrnaadatabaseofbaseinteractionsinrnastructures AT firdausraihm interrnaadatabaseofbaseinteractionsinrnastructures |