Fig. 5: X-ray crystal structure of MraYAA bound to SPM-1.
From: Synthesis of macrocyclic nucleoside antibacterials and their interactions with MraY
a, left: The MraYAA-SPM-1 complex structure as viewed from the membrane, with one protomer shown in surface representation and one in the cartoon. SPM-1 is shown in salmon. For simplicity, one protomer of MraYAA with bound SPM-1 is shown from the membrane (center) and cytoplasmic views (right). b The binding sites recognized by SPM-1 (salmon) on the cytoplasmic side of MraYAA include the uridine (red), uridine-adjacent (lime green), TM9b/Loop E (purple), and hydrophobic (cyan) pockets. c A zoomed-in view of the SPM-1 binding site in the same orientation as shown in (b). Residues forming interactions with SPM-1 are labeled and color-coded according to the binding pocket to which they belong. Hydrogen bonds are represented by black dashed lines. SPM-1 binds on the cytoplasmic face of MraY formed by TMs 5, 8, and 9b and Loops C, D, and E (labeled throughout).
