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. 2019 Jul 12;10:3085. doi: 10.1038/s41467-019-11083-2

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Fig. 3 — Substrate recognition by the D1D2 core of DEAD-box helicases. a In stereo, the superimposition of the D2:dsRNA complex of Mss116p (in green, PDB entry 4DB2) with the D1D2:dsRNA:D1D2 complex of DDX3X (D1 in cyan, D2 in palecyan, RNA strands in red and blue, this work). The two structures are aligned based on D2 and are illustrated as cartoon models. The D1D2 core of DDX3X is also outlined with a transparent molecular surface in white. The double-headed arrow indicates a distance of ∼35 Å. b In stereo, the superimposition of the D1D2:ssRNA:MgAMPPNP complex of Vasa (protein in palecyan, RNA in blue, Mg in black, and AMPPNP in atomic color; PDB: 2DB3) with the D1D2:dsRNA:D1D2 complex of DDX3X (protein in cyan, RNA Strand 1 in blue and Strand 2 in red; this work). The two structures are aligned based on D1 and are illustrated as cartoon models. The D1D2 core of DDX3X is also outlined with a transparent molecular surface in white. RNA Strand 1 (in blue) is recognized by both D1 and D2 in the two structures. The single-stranded RNA (ssRNA) in the D1D2:ssRNA:MgAMPPNP structure (PDB: 2DB3) corresponds to part of the Strand 1 in the D1D2:dsRNA:D1D2 structure (this work)