text: user65: I'm looking to dock a large ligand (~90kDa) to a receptor slightly larger receptor  (~125kDa) using Hex. If anyone is familiar with docking large structures, are there any recommended parameters for finding the best docking solution?
  Parameters in particular:
  
  Number of Solutions  
  N order of correlation for initial and final
  searches 
  Receptor Range 
  Ligand Range
  
  
  user172: While I have no experience with this specific question you have, according to Feinstein & Brylinski (2015), a "fully automated procedure", i.e. a Perl script, can be used to optimize the box size itself, and it can be found here.
  
original_text: 65: <p>I'm looking to dock a large ligand (~90kDa) to a receptor slightly larger receptor  (~125kDa) using Hex. If anyone is familiar with docking large structures, are there any recommended parameters for finding the best docking solution?</p>
  
  <p>Parameters in particular:</p>
  
  <ul>
  <li>Number of Solutions  </li>
  <li>N order of correlation for initial and final
  searches </li>
  <li>Receptor Range </li>
  <li>Ligand Range</li>
  </ul>
   172: <p>While I have no experience with this <em>specific</em> question you have, according to Feinstein &amp; Brylinski (<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4468813/" rel="nofollow noreferrer">2015</a>), a "fully automated procedure", i.e. a Perl script, can be used to optimize the box size itself, and it can be found <a href="http://brylinski.cct.lsu.edu/content/docking-box-size" rel="nofollow noreferrer">here</a>.</p>
  