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. 2018 Apr 3;8:5545. doi: 10.1038/s41598-018-23845-x

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© The Author(s) 2018

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Conformational changes in the RNA local flexibility of the IRES incubated with native ribosomes. (A) Reactivity patterns for IA (black) and 1M6 (gray) reagents obtained after QuSHAPE software processing for representative regions of domain 2, 3 and 4–5 of the free IRES element. Black and grey arrows depict some examples of enhanced reactivity toward IA or 1M6, respectively. (B) Statistically significant SHAPE differences towards IA and 1M6 of the RNA incubated with R fraction relative to free RNA as a function of the nucleotide position. Red or blue bars depict nucleotides with p-values < 0.05 and absolute SHAPE reactivity differences higher or lower than 0.2, respectively. Grey bars depict non-statistically significant differences (p-values > 0.05 and/or absolute differences D <0.2).