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. Author manuscript; available in PMC: 2018 Nov 20.
Published in final edited form as: Chem Res Toxicol. 2017 Oct 23;30(11):2023–2032. doi: 10.1021/acs.chemrestox.7b00227

Figure 4.

Figure 4

Crystal structures of pol κ: LdG-DNA:dNTP* ternary complexes at the (A) insertion and (B) extension stages. The overall structures of pol κ:LdG-DNA:dNTP* ternary complexes (central panels) are in the back views with the minor groove DNA facing the viewer. dNTP* is dCMPNPP (dCTP*) or dAMPNPP (dATP*). Template is in light pink, primer in gray, LdG in orange, and Mg2+ ions in green spheres. The protein is depicted in three colors: core domains (palm, finger and thumb) are in cyan, little finger (LF) is in light purple, and N-clasp is in beige. Orthogonal views of the replicating base pairs (bottom panels) at the active site with 2Fo–Fc map (blue mesh) contoured at 1σ. Top panels are zoomed-in views of the detailed stabilization of the bulky LdG ring (orange) by surrounding amino acid residues, solvent molecules, polyethene glycol (PEG) and glycerol (Gol), and backbone of the template strand (pink).