Hi,

One can visualize the number of hydrogen bonds, electrostatic interactions, steric interactions etc via scores of software's viz. Discovery studio, Molegro etc. To accomplish this task using Molegro you have to have open the pdb file and click on ligand map dialog box and then press on show interactions. You can customize the interactions as per your choice.   

Hello,

Apart from above mentioned software's I would like to add few more points in this regard:

You can check 3D interactions of protein-ligand complex from RCSB PDB under ligand explorer. You can select the type of interactions you want to check like Hydrogen bond, Hydrophobic, bridged H-bond, Metal interaction and neighbor residues. What you required is Java software.

You can aslo check the interactions by using PDBsum (Pictorial database of 3D structures in the Protein Data Bank). After inserting the PDB code, go to content and select you ligand. Then you will find a file by the name "List of interaction". There you can find number of hydrogen bonds, non-bonding contacts, 

You may use LigPlot.

Thanks for the answers, but I need to calculate that interaction (and others) in command line for virtual screenning, so, I can't calculate one by one of this molecules...