Novel base triples in RNA structures revealed by graph theoretical searching methods

被引：18

作者：

Firdaus-Raih, Mohd ^{[1
,3
]}

Harrison, Anne-Marie ^{[1
]}

Willett, Peter ^{[2
]}

Artymiuk, Peter J. ^{[1
]}

机构：

[1] Univ Sheffield, Dept Mol Biol & Biotechnol, Sheffield S10 2TN, S Yorkshire, England

[2] Univ Sheffield, Dept Informat Studies, Sheffield S10 2TN, S Yorkshire, England

[3] Univ Kebangsaan Malaysia, Sch Biosci & Biotechnol, Fac Sci & Technol, Ukm Bangi 43600, Malaysia

来源：

BMC BIOINFORMATICS | 2011年 / 12卷

基金：

英国生物技术与生命科学研究理事会;

关键词：

PEPTIDE-BOND FORMATION; LARGE RIBOSOMAL-SUBUNIT; PHENYLALANINE TRANSFER-RNA; DELTA VIRUS RIBOZYME; ANGSTROM RESOLUTION; CRYSTAL-STRUCTURE; 3-DIMENSIONAL STRUCTURE; HAMMERHEAD RIBOZYME; BINDING-SITES; CATALYSIS;

D O I：

10.1186/1471-2105-12-S13-S2

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

Background: Highly hydrogen bonded base interactions play a major part in stabilizing the tertiary structures of complex RNA molecules, such as transfer-RNAs, ribozymes and ribosomal RNAs. Results: We describe the graph theoretical identification and searching of highly hydrogen bonded base triples, where each base is involved in at least two hydrogen bonds with the other bases. Our approach correlates theoretically predicted base triples with literature-based compilations and other actual occurrences in crystal structures. The use of 'fuzzy' search tolerances has enabled us to discover a number of triple interaction types that have not been previously recorded nor predicted theoretically. Conclusions: Comparative analyses of different ribosomal RNA structures reveal several conserved base triple motifs in 50S rRNA structures, indicating an important role in structural stabilization and ultimately RNA function.

引用

页数：13

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