Fig. 8: Comparison of c-di-GMP bound to a canonical RxxD motif (left) in the PelD-c-di-GMP complex (4DN0: https://www.rcsb.org/structure/4dn0) to the RxxD containing region in the S. venezuelae GlgX-c-di-GMP complex (right).
From: Allosteric regulation of glycogen breakdown by the second messenger cyclic di-GMP
The arginine and aspartic acid of the PelD RxxD motif specifies two bases of a bound c-di-GMP intercalated dimer. By contrast, the guanine bases of the c-di-GMP bound to GlgX are specified by residues outside the arginine and aspartic acid of the GlgX RxxD region, specifically the first glutamic acid and last arginine in the GlgX ExR(X)6R motif as well as main chain atoms.
