publication . Article . 2006

The prediction of the wild-type telomerase RNA pseudoknot structure and the pivotal role of the bulge in its formation

Yaroslava G. Yingling; Bruce A. Shapiro;
Open Access
  • Published: 15 Feb 2006 Journal: Journal of Molecular Graphics and Modelling, volume 25, pages 261-274 (issn: 1093-3263, Copyright policy)
  • Publisher: Elsevier BV
Abstract
In this study, the three-dimensional structure of the wild-type human telomerase RNA pseudoknot was predicted via molecular modeling. The wild-type pseudoknot structure is then compared to the recent NMR solution structure of the telomerase pseudoknot, which does not contain the U177 bulge. The removal of the bulge from the pseudoknot structure results in higher stability and significant reduction of activity of telomerase. We show that the effect of the bulge on the structure results in a significant transformation of the pseudoknot junction region where the starting base pairs are disrupted and unique triple base pairs are formed. We found that the formation o...
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Medical Subject Headings: viruses
free text keywords: Materials Chemistry, Computer Graphics and Computer-Aided Design, Physical and Theoretical Chemistry, Spectroscopy, RNA, Biology, Molecular model, Base pair, Telomerase, Bulge, Pseudoknot, Biophysics, Genetics, Molecular dynamics, Wild type
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