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. 2014 Feb 24;42(8):5347–5360. doi: 10.1093/nar/gku140

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© The Author(s) 2014. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 7. — Shape reconstruction of the +A RNP particle. (A) The final averaged and filtered two phase shape was calculated by MONSA, shown in orthogonal views. The upper series shows the reconstruction with both RNA (yellow spheres) and protein (green spheres) phases (upper series) and with the RNA phase only (lower series). The final overall particle has dimensions of ∼244 × ∼140 × ∼80 Å. The final NSD figure for the averaged and filtered envelope is 0.77 ± 0.16. (B) Manual superposition of SAXS reconstructions for +A (magenta) and +A-DII(tRNA) (purple), revealing the different spatial feature assigned to the tRNA insertion. The available crystallographic structure of phenylalanine-tRNA [2TRA (46), blue] is manually docked into this lobe of difference density. The +A-DII(tRNA) variant is a prolate ellipsoid with comparable dimensions of 177 × 181 × 260 Å. Galleries of individual reconstructions for both particles are provided in Supplementary Figure S5. (C) Speculative model for the quaternary arrangement of the +A RNP. Roman numerals denote the speculative placement of the structural domains of the RNA component (yellow) based on the tRNA insertion data, connectivity and percentage volumes estimated for each domain based on sequence and the requirement for LtrA dimer binding to domain IV.