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. 2013 Jan 29;41(5):3457–3470. doi: 10.1093/nar/gkt042

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© The Author(s) 2013. Published by Oxford University Press.

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

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Figure 3. — Structural models of siRNA duplex recognition by RHA dsRBD1 + 2. (A) (Left panel) Cartoon view of crystal structure of RHA dsRBD1 in complex with dsRNA. In this structure, the dsRNA is recognized by a pair of RHA dsRBD1 from both sides. The dsRNA is shown in stick mode and coloured in orange, whereas two RHA dsRBD1 domains are shown in cartoon view. One copy of RHA dsRBD1 is coloured in magenta and the second copy is coloured in cyan. Our structure might represent a structural model of siRNA duplex recognition by RHA dsRBD1 + 2. In this model, siRNA duplex is recognized by RHA dsRBD1 and RHA dsRBD2 simultaneously from both sides, whereas the flexible linker may wrap around siRNA duplex. (Right panel) Cartoon view of the crystal structure of A. aeolicus RNaseIII-dsRBD in complex with dsRNA. In this structure, the dsRNA is recognized by a pair of dsRBD domains from both sides. The dsRNA is shown in stick mode, whereas two dsRBD domains are shown in cartoon view. (B) Electrostatic surface view of (A). (C) Structural alignment of RHA dsRBD1s/dsRNA complex with A. aeolicus dsRBDs/dsRNA complex. (Left panel) Superimposition of the structures by alignment of one dsRBD domain. Two RHA dsRBD1 domains and the bound dsRNA are coloured in magenta, whereas two A. aeolicus dsRBD domains and the bound dsRNA are coloured in cyan. (Right panel) Rotation of (left panel) along X-axis by 180°.