Molecular Dynamics simulations suggest possible activation and deactivation pathways in hERG channel

1. equil_gating_4_assembly_xleap.prmtop: file topology of the hERG closed state with gating charge 4 equilibration trajectory
2. equil_gating_6_assembly_xleap.prmtop: file topology of the hERG closed state with gating charge 6 equilibration trajectory
3. equil_gating_8_assembly_xleap.prmtop: file topology of the hERG closed state with gating charge 8 equilibration trajectory
4. equil_gating_4.dcd: 100 ns NPT trajectory of the hERG closed state with gating charge 4
5. equil_gating_6.dcd: 100 ns NPT trajectory of the hERG closed state with gating charge 6
6. equil_gating_8.dcd: 100 ns NPT trajectory of the hERG closed state with gating charge 8
7. equil_open_assembly_xleap.prmtop: file topology of the hERG open state equilibration trajectory
8. equil_open.dcd: 100 ns NPT trajectory of the hERG open state
9. herg_closed_gating_4.pdb: PDB file of hERG closed state with gating charge 4 after Steered MD simulations
10. herg_closed_gating_6.pdb: PDB file of hERG closed state with gating charge 6 after Steered MD simulations
11. herg_closed_gating_8.pdb: PDB file of hERG closed state with gating charge 8 after Steered MD simulations
12. TMD_O-C_closed_gating_8_assembly_xleap.prmtop: file topology of the hERG closed state with gating charge 8 TMD trajectory
13. TMD_O-C_closed_gating_6_assembly_xleap.prmtop: file topology of the hERG closed state with gating charge 6 TMD trajectory
14. TMD_O-C_closed_gating_4_assembly_xleap.prmtop: file topology of the hERG closed state with gating charge 4 TMD trajectory
15. TMD_O-C_closed_gating_8.dcd: TMD trajectory of the hERG closed state with gating charge 8
16. TMD_O-C_closed_gating_6.dcd: TMD trajectory of the hERG closed state with gating charge 6
17. TMD_O-C_closed_gating_4.dcd: TMD trajectory of the hERG closed state with gating charge 4

MD trajectories (equilibration and Targeted MD trajectories) in dcd format can be visualized using visualization tools such as VMD or PyMol after uploading the topology file.