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. 2018 Sep 10;8:13497. doi: 10.1038/s41598-018-31812-9

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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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Cluster analysis for lever arm conformations. (A) Clustering of individual MD trajectories shows trends in the conformational space sampled in different states of GR. For each molecule clusters are ordered by decreasing frequency. (B) Combined clustering of the duplicate trajectories for DNA-free GR DBD (molecule C), 4HN5, and 3G99 shows which clusters are shared between the different molecules. The results show that the two monomers bound to a GBS spend ~40% of their time in the same conformation. Further significant overlap is observed between free GR and the low affinity binding site within the IR-GBS complex (IR-GBS2). Molecule IR-GBS1 does not have significant overlap with any other molecules.