Global Dynamics of AMPAR and NMDAR:
A Comparative Study
Movies 1-8. We present here the animations of selected collective modes intrinsically accessible to the two iGluRs. The movies are organized in pairs to allow for direct comparison of equivalent (similar) global modes between AMPAR (PDB id: 3KG2) and NMDAR (PDB id: 4PE5). Most movies are color-coded from blue (most rigid) to red (most mobile), except for a few cases colored by chain (subunit A: green; B: blue, C: magenta; D: yellow) for better visualization of the relative movements of the individual subunits. Below is the list of movies generated for either the full length receptors or the core structures.
Movie 1. Comparison of AMPAR mode 1 and NMDAR mode 1 for the full length (A-B) and core (C-D) structures.
Movie 2. Comparison of full length AMPAR mode 3 and full length NMDAR mode 4.
Movie 3. Comparison of full length AMPAR mode 7 and full length NMDAR mode 6.
Movie 4. Comparison of AMPAR core mode 2 and NMDAR core mode 6.
Movie 5. Comparison of AMPAR core mode 3 and NMDAR core mode 3.
Movie 6. Comparison of AMPAR core mode 4 and NMDAR core mode 4.
Movie 7. Comparison of AMPAR core mode 7 and NMDAR core mode 7 (A-B) and AMPAR core mode 10 and NMDAR core mode 8 (C-D).
Movie 8. Comparison of AMPAR core mode 14 and NMDAR core mode 12.
Movie 9. ANM mode 6 accessible to AMPAR core, which plays a major role in the interconversion from the crystallographically resolved AMPAR structure (PDB id: 3KG2) toward the NMDAR structure (PDB id: 4PE5) (see Figure 1C).
Movie 10. ANM mode 4 accessible to full length AMPAR (counterpart of core mode 6; movie 9), which plays a major role in the interconversion from the crystallographically resolved AMPAR structure (PDB id: 3KG2) toward the NMDAR structure (PDB id: 4PE5) (see Figure 3).
Movie 11. Coupling between NTD inter-dimer opening/closing and LBD-NTD packing, shown for ANM core mode 17 accessible to NMDAR. This mode makes the largest contribution to the reconfiguration of the crystallographically resolved NMDAR structure (PDB id: 4PE5) toward the AMPAR structure (PDB id: 3KG2) (see Figure 1D).
|AMPAR-mode1||NMDAR-mode1||side||A (full length)||B (full length)||C (core)||D (core)|
Movie 1 Movie 2 Movie 3 Movie 4 Movie 5 Movie 6 Movie 7 Movie 8 Movie 9 Movie 10 Movie 11