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. 2020 Jul 28;10:12618. doi: 10.1038/s41598-020-69313-3

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© The Author(s) 2020

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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Statistics of database-wide mapping of ribosomal inter-molecular cross-links. (A) Classification of cross-links. Satisfied: cross-links always in the allowed range; Mixed-typed: cross-links both in the allowed and in the violated range, depending on the ribosome structure; Violated: cross-links always outside the allowed range; Novel: cross-links that could not be mapped on any high resolution ribosomal structure. (B) Classification of mappable cross-links on published structures. PDB IDs (https://www.rscb.org) with the same count of satisfied and violated cross-links are grouped. Pruned pdb-codes: ^(A)5J88, 5J8A, 5J91, 5JC9; ^(B)5MDY, 5MDZ, 6HRM; ^(C)4U24, 4U25, 4U26, 4U27, 4V52, 4V54, 4V57, 4V64, 4V6C, 4V7S, 4V7T, 4V7U, 4V7V, 4V9C, 4V9D, 4WF1, 4WOI, 4WWW. (C) Cross-links on 5U9F, the published structure with the highest number of satisfied cross-links. Cross-links that satisfy the distance range are shown in yellow dashed lines; distances that are violated are shown in red. Ribosomal proteins (black) and rRNA (grey) are shown in cartoon presentation. The images of protein structures were generated with PyMOL (Version 2.3.2), Schrödinger, LCC. URL: https://pymol.org.