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. 2009 Dec;15(12):2248–2263. doi: 10.1261/rna.1723609

FIGURE 5.

FIGURE 5.

The native secondary structure and tertiary structure of the T arm and acceptor arm of the tRNA-like structure of the turnip yellow mosaic virus. (A) The native secondary structure. (B) The native tertiary structure taken from the PDB databank (PDB 1A60; http://www.wwpdb.org/). (C) The tertiary structure predicted by pk3D, which reproduces correctly the spatial arrangement of three stems, as well as their coaxial stacking observed in the experimental structure. The helices in B and C are colored using the same scheme. The loops are shown in yellow dashed lines to illustrate the chain connectivity.