Difference between revisions of "Normal Mode Analysis BCKDHA"

From Bioinformatikpedia
(All-atom NMA using Gromacs on the NOMAD-Ref server)
(Advantages and Disadvantages from NMA and MD)
Line 21: Line 21:
   
 
== Advantages and Disadvantages from NMA and MD ==
 
== Advantages and Disadvantages from NMA and MD ==
  +
  +
  +
== References ==
  +
<references>
   
 
go back to Task 8: [[Molecular_Dynamics_Simulations_BCKDHA| Molecular Dynamics Simulations]]
 
go back to Task 8: [[Molecular_Dynamics_Simulations_BCKDHA| Molecular Dynamics Simulations]]

Revision as of 13:20, 14 July 2011

WEBnm@

ElNemo

Anisotropic Network Model web server

oGNM – Gaussian network model

NOMAD-Ref

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

References

<references>

go back to Task 8: Molecular Dynamics Simulations