Difference between revisions of "Task9 Hemochromatosis Protocol"

From Bioinformatikpedia
(Created page with "Casting Spell: Create Protocol Page")
 
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== Structure preparation ==
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Casting Spell: Create Protocol Page
  
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'perl repairPDB.pl 1a6z.ent C: -jprot -offset 22 > 1a6zC.pdb'
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'perl repairPDB.pl 1de4.ent A: -jprot -offset 22 > 1de4A.pdb'
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<br style="clear:both;">
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== WEBnm@ ==
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Sample PyMol script for movie generation:
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<source lang="python">
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#start
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reinitialize
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load ../1a6zC.pdb, 1a6zC
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load ../webnma/modes_visualization/1a6zC.mode7.xyz, Mode
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load_traj ../webnma/modes_visualization/1a6zC.mode7.dcd, Mode
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hide everything, all
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show cartoon, 1a6zC
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show spheres, Mode
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show mesh, Mode
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color green, 1a6zC
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color red, Mode
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mset 2 -10 -2
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set ray_trace_frames, 1
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set sphere_transparency, 0.7
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</source>
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<br style="clear:both;">
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== ElNemo ==
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<br style="clear:both;">

Revision as of 15:53, 25 July 2012

Structure preparation

'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


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