[Dock-fans] problem selecting spheres
zambonel at gmail.com
Sun Apr 27 07:28:42 PDT 2008
after successfully completing all the tutorials using L-arabinose
binding protein I started working on my first real docking. Everything
went smoothly until I reached the point where I have to select spheres.
Following the instruction in the Generating Spheres tutorial I start
having problems in "STEP 3: Select a subset of spheres to represent the
binding site(s) - Option 1". How do I create a selected_spheres.sph
file? This is clear with option 2 using sphere_selector (which is what I
did in the tutorial), but what should I do if I have no idea where is
the binding site on my protein? Since I do not know where is the binding
site on my molecule, or if there is only one binding site, can I create
a selected_spheres.sph file containing all spheres in rec.sph?
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