Difference between revisions of "MD Mutation436"
From Bioinformatikpedia
(Created page with "=== check the trajectory === === Visualize in pymol === === create a movie === === energy calculations for pressure, temperature, potential and total energy === === minimum d…") |
|||
| Line 25: | Line 25: | ||
=== RMSD matrix === |
=== RMSD matrix === |
||
| − | + | === cluster analysis === |
|
| − | + | === internal RMSD === |
|
Revision as of 09:47, 29 August 2011
Contents
- 1 check the trajectory
- 2 Visualize in pymol
- 3 create a movie
- 4 energy calculations for pressure, temperature, potential and total energy
- 5 minimum distance between periodic boundary cells
- 6 RMSF for protein and C-alpha
- 7 Pymol analysis of average and bfactor
- 8 Radius of gyration
- 9 solvent accesible surface area
- 10 hydrogen-bonds
- 11 salt bridges
- 12 Ramachandran plot
- 13 RMSD matrix
- 14 cluster analysis
- 15 internal RMSD
