Extended Data Figure 1: Mutagenic 8-oxo-dGTP insertion opposite adenine.
From: Uncovering the polymerase-induced cytotoxicity of an oxidized nucleotide
a, Overlay of the ternary complex for 8-oxo-dGTP(syn):Ad generated with Ca2+ or a dideoxy-terminated primer (Protein Data Bank accession number 3MBY) is shown in yellow and green, respectively (root mean squared deviation of 0.17 Å). b, The pol β active site is shown with a 2Fo − Fc map contoured at 1.5σ after a 20 s soak. Key active site residues are indicated and Mg2+ ions are shown as red spheres. The reactant 8-oxo-dGTP and product 8-oxo-dGMP are shown in green and yellow respectively. c, A focused view of b with the density removed. Coordinating waters (blue) and their distances (in ångströms) to active site metals are shown. d, The active site following a 40 s soak is shown with an omit map (3σ) for the Mgp and coordinating waters. e, The coordination distances (in ångströms) for the Nac, Mgp, and Mgn metals are indicated for the closed product complex after a 40 s soak. f, The 8-oxo-dGMP(anti):Ad contact between N3 and N6 of 8-oxo-dGMP and Ad respectively is shown for the open product complex after a 90 s soak.
