NMR-assisted prediction of RNA secondary structure: identification of a probable pseudoknot in the coding region of an R2 retrotransposon.
NMR-assisted prediction of RNA secondary structure: identification of a probable pseudoknot in the coding region of an R2 retrotransposon.
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DOI：
10.1021/ja8026696
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发表时间：
2008-08-06
影响因子：
15
通讯作者：
Turner DH
中科院分区：
文献类型：
--
作者：
Hart JM;Kennedy SD;Mathews DH;Turner DH
As the rate of functional RNA sequence discovery escalates, high-throughput techniques for reliable structural determination are becoming crucial for revealing the essential features of these RNAs in a timely fashion. Computational predictions of RNA secondary structure quickly generate reasonable models but suffer from several approximations, including overly simplified models and incomplete knowledge of significant interactions. Similar problems limit the accuracy of predictions for other self-folding polymers, including DNA and peptide nucleic acid (PNA). The work presented here demonstrates that incorporating unassigned data from simple nuclear magnetic resonance (NMR) experiments into a dynamic folding algorithm greatly reduces the potential folding space of a given RNA and therefore increases the confidence and accuracy of modeling. This procedure has been packaged into an NMR-assisted prediction of secondary structure (NAPSS) algorithm that can produce pseudoknotted as well as non-pseudoknotted secondary structures. The method reveals a probable pseudoknot in the part of the coding region of the R2 retrotransposon from Bombyx mori that orchestrates second-strand DNA cleavage during insertion into the genome.
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影响因子：
14.9
作者：
ALLAIN, FHT;VARANI, G
通讯作者：
VARANI, G
影响因子：
2.9
作者：
Du, ZH;Yu, JH;James, TL
通讯作者：
James, TL
影响因子：
14.9
作者：
Kierzek, Elzbieta;Mathews, David H.;Ciesielska, Anna;Turner, Douglas H.;Kierzek, Ryszard
通讯作者：
Kierzek, Ryszard
DOI：
10.1073/pnas.0506166102
发表时间：
2005-09-06
影响因子：
11.1
作者：
Cornish, PV;Hennig, M;Giedroc, DP
通讯作者：
Giedroc, DP
影响因子：
3
作者：
Dirks, RM;Pierce, NA
通讯作者：
Pierce, NA