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. Author manuscript; available in PMC: 2013 Jan 31.
Published in final edited form as: Nat Struct Mol Biol. 2009 Jan 11;16(2):138–143. doi: 10.1038/nsmb.1538

Figure 3.

Figure 3

Protein-DNA contacts. (a) Protein-DNA contacts in the wild-type product complex. Hydrogen bond/ionic interactions (dashed lines, 3.75Å cut-off), main chain amide nitrogen atoms (N) and steric interactions (orange arcs, 4.25Å cut-off) involving side chains (yellow circles) are shown for one of the two EndoV molecules binding symmetrically to the DNA. (b) Close-up of the coordination around the phosphodiester insicion. (c) Close-up of the strand separating PYIP-wedge with selected distances to DNA bases stacking with residues defining the protein surface. The hypoxanthine (dark red) is partially buried behind the wedge.