Molecular Dynamics Study of the Opening Mechanism for DNA Polymerase I
Figure 7
An overlay of the DNA polymerase fingers subdomain for the 3HP6 crystal structure (blue ribbons) and the observed 1LV5 intermediate state (yellow ribbons) characterized by the Arg703-Glu562 salt bridge.
Although the end of the O-helix for both structures is near the same location, the α-helices in the fingers domain are clearly different resulting in the 4.3 Å RMSD between the 1LV5 intermediate and the 3HP6 crystal structure.