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Publication for BayesFold
The Plausibility of RNA Templated Peptides: Simultaneous RNA Affinity for Adjacent Peptide Side Chains
[…] bably interact with peptide, are adjacent to such site nucleotides or linked to them within a folding domain.There are multiple RNA folds that bind His–Phe. Two-dimensional structure prediction using BayesFold (Knight et al. ) and protection or binding interference/enhancement after chemical probing indicate two recurring motifs in the RNA random region which are likely important for binding to Hi […]
Specific RNA binding to ordered phospholipid bilayers
[…] type of phospholipid–RNA interface, as discussed above.In contrast, RNA binding to lipid rafts exhibits RNA-structure specificity. The computed RNA secondary structures in the table are the output of BayesFold, a Bayesian folding program (). The highest level of binding (17 or 16%) was observed for RNA 10 and RNA 67-2, a derivative of RNA 10 having 8 nt changed within the left-hand hairpin loop. A […]
A diminutive and specific RNA binding site for L tryptophan
[…] n a 26 nt long segment is shown in where shaded positions are at least 70% conserved. Frequencies are adjusted for the initial bias (7:1:1:1) in the doped pool. also shows the relevant segment of a BayesFold prediction for the structure common to the 59 available aligned sequences. The re-mutagenized and re-selected RNAs recaptured the parental loop structure of Trp 20–605 (), as we had intended […]
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