Task9 Hemochromatosis Protocol

Structure preparation

Make both structures equal (especially for WEBnm@):

'perl repairPDB.pl 1a6z.ent C: -jprot -offset 22 > 1a6zC.pdb'
'perl repairPDB.pl 1de4.ent A: -jprot -offset 22 > 1de4A.pdb'

WEBnm@

Sample PyMol script for movie generation: <source lang="python">

1. start

reinitialize load ../1a6zC.pdb, 1a6zC load ../webnma/modes_visualization/1a6zC.mode7.xyz, Mode load_traj ../webnma/modes_visualization/1a6zC.mode7.dcd, Mode

hide everything, all show cartoon, 1a6zC show spheres, Mode show mesh, Mode

color green, 1a6zC color red, Mode

mset 2 -10 -2 set ray_trace_frames, 1 set sphere_transparency, 0.7 </source>

ElNemo

Sample PyMol script for movie generation: <source lang="python">

1. start

reinitialize load ../1a6zC.pdb, 1a6zC load ../elnemo/1a6zC/7.pdb, Mode

dss

hide everything, all show cartoon, all

color green, 1a6zC color red, Mode

mset 1 -11 -2 set ray_trace_frames, 1 </source>