Normal Mode Analysis BCKDHA

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Revision as of 13:19, 14 July 2011 by Demel (talk | contribs) (All-atom NMA using Gromacs on the NOMAD-Ref server)



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