Fabry:Normal mode analysis/Journal

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Graphical representation VMD:

Coloring Method: Chain
Material: Glossy
Drawing Method: QuickSurf
Radius Scale: 0.8
Density Isovalue: 0.3
Grid Spacing: 0.5
Surface Quality: Max
Orthographic View
Color: green2
Light: 0,2,3

...rather not so good. I like pymol:

delete 3HG2.mode9
load 3HG2.mode10.xyz
load_traj 3HG2.mode10.dcd
show spheres, 3HG2.mode10
color cyan, 3HG2.mode10
zoom A
color red, sele
zoom B
color red, sele

zoom
show_as surface,3HG2.mode10
set solvent_radius, 1.6
mpng mode10

make a movie

convert -delay 30 *.ppm modeX.gif