Fig. 2: Structural basis for DNA binding by the PolD–PCNA complex.
From: Structural basis for the increased processivity of D-family DNA polymerases in complex with PCNA
a View of the DP2 clamp-1 (light blue) and clamp-2 (dark blue) domains surrounding one turn of the DNA duplex (orange). The two catalytic double-psi β-barrels DPBB-1 and DPBB-2 are represented in red and yellow, respectively. Template and primer strands are indicated by T and P, respectively. b Interaction with the PolD clamp causes a local distortion of the DNA (orange) compared with an ideal B-form DNA (white). The phosphates of the DNA duplexes are shown as spheres. c PCNA makes labile contacts with DNA. Focused classification on PCNA resulted in three 3D classes showing extra-densities between DNA and PCNA residues K84 and K86, which are underlined by arrows.
