Figure 3.

Activation model of GluA2 AMPAR and validation. (A) Model from MD simulation. The A/C and B/D subunits are in two shades of red and blue, respectively. The D1 and D2 subdomains are represented as ovals, the M3 helices as rods, and the M3-D2 linkers as lines; the latter are critial in coupling LBD and TMD motions. (B) Validation by substituted cysteine modification rates of Sobolevsky et al.³⁹ The functional data (blue bars) are ln(k_M⁺/k_M^–), where k_M⁺ and k_M^– are modification rates in the presence and absence of glutamate; arrows on top indicate that the bars present lower bounds. The MD simulation results (red bars) are differences in solvent accessible area (in Ų) of residues between the activated and resting states. Adapted with permission from ref (31). Copyright 2011 Nature Publishing Group.