Results 41 to 50 of about 143,515 (300)
Inverse folding of RNA pseudoknot structures
Algorithms for Molecular Biology, 2010 Background RNA exhibits a variety of structural configurations. Here we consider a structure to be tantamount to the noncrossing Watson-Crick and G-U-base pairings (secondary structure) and additional cross-serial base pairs.
Li Linda YM +2 more
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TRANSAT-- method for detecting the conserved helices of functional RNA structures, including transient, pseudo-knotted and alternative structures. [PDF]
PLoS Computational Biology, 2010 The prediction of functional RNA structures has attracted increased interest, as it allows us to study the potential functional roles of many genes. RNA structure prediction methods, however, assume that there is a unique functional RNA structure and ...
Nicholas J P Wiebe, Irmtraud M Meyer
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An improved method for surface immobilisation of RNA: application to small Non-Coding RNA - mRNA pairing [PDF]
, 2013 Characterisation of RNA and its intermolecular interactions is increasing in importance as the inventory of known RNA functions continues to expand. RNA-RNA interactions are central to post-transcriptional gene regulation mechanisms in bacteria, and the ...
Darren M. Gowers (485354) +29 more
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Nature Communications, 2016 Short-lived RNA folding intermediates have important roles in the folding of RNA. Here, the authors combine 15N relaxation dispersion NMR with chemical probing to visualise one of these intermediates, and are able to show it is a secondary structural ...
Yi Xue +4 more
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Nucleic Acids Research, 1984 The folding of single-stranded RNA into its secondary structure is postulated to be equivalent to the simple rule that the next double-helical region (stem) to form is the one with the largest equilibrium constant. The rule is tested and shown to give results consistent with the enzyme cleavage data of several sequences.
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RNA folding energy landscapes [PDF]
Proceedings of the National Academy of Sciences, 2000 Using a statistical mechanical treatment, we study RNA folding energy landscapes. We first validate the theory by showing that, for the RNA molecules we tested having only secondary structures, this treatment ( i ) predicts about the same native structures as the Zuker method, and ( ii ...
S J, Chen, K A, Dill
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A critical base pair in k-turns that confers folding characteristics and correlates with biological function [PDF]
, 2014 Kink turns (k-turns) are widespread elements in RNA that mediate tertiary contacts by kinking the helical axis. We have found that the ability of k-turns to undergo ion-induced folding is conferred by a single base pair that follows the conserved A·G ...
Lilley, David M. J.; id_orcid +2 more
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SHAPE directed RNA folding [PDF]
Bioinformatics, 2015 Abstract Summary: Chemical mapping experiments allow for nucleotide resolution assessment of RNA structure. We demonstrate that different strategies of integrating probing data with thermodynamics-based RNA secondary structure prediction algorithms can be implemented by means of soft constraints. This amounts to incorporating suitable
Luntzer, Dominik +4 more
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FEBS Letters, EarlyView.We identified a systemic, progressive loss of protein S‐glutathionylation—detected by nonreducing western blotting—alongside dysregulation of glutathione‐cycle enzymes in both neuronal and peripheral tissues of Taiwanese SMA mice. These alterations were partially rescued by SMN antisense oligonucleotide therapy, revealing persistent redox imbalance as ...
Sofia Vrettou, Brunhilde Wirth
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, 2011 Riboswitch RNAs fold into complex tertiary structures upon binding to their cognate ligand. Ligand recognition is accomplished by key residues in the binding pocket.
Julia Wirmer-Bartoschek +17 more
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