Three-dimensional motifs from the SCOR, structural classification of RNA database: extruded strands, base triples, tetraloops and U-turns
| Autor: | Steven E. Brenner, Makio Tamura, Peter S. Klosterman, Donna K. Hendrix, Stephen R. Holbrook |
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| Rok vydání: | 2004 |
| Předmět: |
Models
Molecular Base Sequence Database Base pair education RNA Internal loop Articles Structural classification Biology computer.software_genre Consensus Sequence Genetics Consensus sequence Nucleic Acid Conformation Base sequence Databases Nucleic Acid Base Pairing computer Single strand Minor groove |
| Zdroj: | Nucleic Acids Research. 32:2342-2352 |
| ISSN: | 1362-4962 |
| DOI: | 10.1093/nar/gkh537 |
| Popis: | Release 2.0.1 of the Structural Classification of RNA (SCOR) database, http://scor.lbl.gov, contains a classification of the internal and hairpin loops in a comprehensive collection of 497 NMR and X-ray RNA structures. This report discusses findings of the classification that have not been reported previously. The SCOR database contains multiple examples of a newly described RNA motif, the extruded helical single strand. Internal loop base triples are classified in SCOR according to their three-dimensional context. These internal loop triples contain several examples of a frequently found motif, the minor groove AGC triple. SCOR also presents the predominant and alternate conformations of hairpin loops, as shown in the most well represented tetraloops, with consensus sequences GNRA, UNCG and ANYA. The ubiquity of the GNRA hairpin turn motif is illustrated by its presence in complex internal loops. |
| Databáze: | OpenAIRE |
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