Normal Mode Analysis BCKDHA
Anisotropic Network Model web server
oGNM – Gaussian network model
All-atom NMA using Gromacs on the NOMAD-Ref server
In order to do the all-atom NMA we needed to prepare our PDB file. The PDB file for 1BPT protein contains 1629 atoms in total, all lines not beginning with "ATOM" were removed from the PDB file.
Advantages and Disadvantages from NMA and MD
go back to Task 8: Molecular Dynamics Simulations