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

ABSTRACT:

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 sev

SUBMITTER: Firdaus-Raih M 

PROVIDER: S-EPMC3278836 | biostudies-literature | 2011

REPOSITORIES: biostudies-literature