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. 2015 Dec 15;44(1):95–105. doi: 10.1093/nar/gkv1457

Figure 6.

Figure 6.

The dynamics of tRNA passing through the gate between the P and E sites, formed by the 16S ribosomal RNA loops of the head and body of the small subunit (residues 1338–1342 and 789–791, respectively). (A) The solvent-side view of 16S ribosomal RNA, with pre-translocation tRNAs on the opposite side. The arrow shows the direction of translocation. (B) Close-up view of the anticodon-stem loop (ASL) of the tRNA passing the gate, between the pE/E (orange, structure 4) and E/E states (red, structures 5,6). The pink arrows show the direction of the movement of 16S rRNA gate-forming loops coupled with tRNA translocation, the trajectory of which is shown with the orange arrow. Starting and ending states are experimental structures and are shown as thick ribbon, the morphed intermediates are shown with thin lines. (C) The view of full tRNA transiting from the P to E site. The colors are as in panel B. Panels A–C were obtained from the morph between 70S structures excluding ribosomal proteins. (D) The view of full tRNA passing through the gate as the tRNA transitions between the pE/E (orange) and E/E (red) states, morphed using 70S structures including ribosomal RNA and proteins. Intermediate structures are shown in gray.