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. 2015 Sep 10;43(19):9541–9552. doi: 10.1093/nar/gkv890

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© The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 2. — New conditions used here for generating high-resolution structures of DNA-bound TDG^cat. (A) Structure of the enzyme–product (E·P) complex generated by incubating TDG^cat with DNA containing a G·U mispair, solved at 1.45 Å resolution (PDB ID: 4Z47). The target DNA strand is yellow, the complementary strand green, TDG^cat is in light orange and water molecules are red spheres. The 2F_o-F_c omit map, contoured at 1.0 σ, is shown for the DNA and the Arg275 side chain of TDG^cat. (B) DNA sequence used for the structures reported here (labeled ‘here’), and the sequence used for a structure of the E·P complex reported by Hashimoto et al. (25) (labeled ‘4FNC’). For both DNAs, ‘x’ represents the abasic site. (C) Interactions involving two Arg resides and a cavity on the TDG^cat surface with the terminal G·C base pair of a symmetry-related DNA molecule. The DNA shown in cartoon format is that to which TDG^cat is specifically bound (at the abasic site). (D) Close-up view of the symmetry-related DNA-TDG^cat contacts shown in panel C.