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. Author manuscript; available in PMC: 2013 Jun 8.
Published in final edited form as: J Mol Biol. 2012 Mar 15;419(3-4):255–274. doi: 10.1016/j.jmb.2012.03.005

Fig. 1.

Fig. 1

Examples of the types of motif interactions included in the motif library. Atoms that define the motif interaction are shown as spheres colored by atom type. (a) Tyrosine residue packing against a thymine methyl group, derived from Tyr25A and Thy317B of 1mow. (b) Bidentate arginine–guanine interaction, derived from Arg274B and Gua418C of 1cyq. (c) Water-mediated interaction identified by placement of waters (transparent blue spheres) on the DNA at canonical locations, derived from Ser47A and Ade516C of 1m5x. (d) Minor groove interaction, derived from Lys116A and Cyt16C of 2np6.

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