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. 2020 Dec;26(12):1755–1766. doi: 10.1261/rna.071100.119

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© 2020 Chang et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society

This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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FIGURE 3. — HNMMC refinement of the handle in Mtb 50S rRNA. (A) Seven levels of the DOF to describe possible motions of the handle. For each level, the red fragment can move as a group while the black fragment is fixed. The magenta labels the sarcin-ricin motif (close to the three-way junction) and the tetra-loop (at the tip of the handle). Combining these seven levels can effectively describe the bending of the handle at each junction. Note that each nucleotide is still allowed to fluctuate around its position within the red fragment for subtle conformational variations. (B) The initial model of the handle obtained from the Mtb 50S is docked against the cryo-EM density of the handle from the Mtb 70S. (C) The HNMMC refined model of the handle.