Figure 2.

Active site of yPDE1. (A) GMP (yellow sticks) binding pocket that is constituted with residues from both molecules A (top left, colored red, blue, and white) and B (bottom right, colored cyan). Dotted lines represent the coordination with zinc ions or hydrogen bonds between GMP and yPDE1. (B) Six coordinations of each zinc ion in an octahedral configuration. (C) Ribbon diagram of GMP binding. The blue mesh is the electron density of the F_o – F_c map that was calculated from the structure with omission of GMP and contoured at 2.5σ.