text: user8598: I have used DOCK software to dock 10 ligands into the protein structure.
  I want to generate a pdb file that contains all 10 binding modes of the ligands together with the protein. So all together in one pdb file.
  Now, what I want to know is when I give this file to LIGPLOT, is it possible to generate something like:
  %polar interactions XX
  %non-polar interactions XX
  %hydrogen interactions XX
  Is there a way to do it with LIGPLOT, if now is there some other software that can be recommended for this type of assessment?
  I have been having hard time, trying to find a way or software that can perform similar type of calculation and give me similar type of output that I want.
  Best
  
  user3861: You can visualize with Discovery Studio Visualizer and Schrodinger.
  Arpeggio and PLIP can generate output files of the different interactions.
  
original_text: 8598: <p>I have used DOCK software to dock 10 ligands into the protein structure.</p>
  
  <p>I want to generate a pdb file that contains all 10 binding modes of the ligands together with the protein. So all together in one pdb file.</p>
  
  <p>Now, what I want to know is when I give this file to LIGPLOT, is it possible to generate something like:</p>
  
  <p>%polar interactions XX
  %non-polar interactions XX
  %hydrogen interactions XX</p>
  
  <p>Is there a way to do it with LIGPLOT, if now is there some other software that can be recommended for this type of assessment?</p>
  
  <p>I have been having hard time, trying to find a way or software that can perform similar type of calculation and give me similar type of output that I want.</p>
  
  <p>Best</p>
   3861: <p>You can visualize with Discovery Studio Visualizer and Schrodinger.
  Arpeggio and PLIP can generate output files of the different interactions.</p>
  