Users of SiteHound or EasyMIFs are requested to cite this article in their publications:

EASYMIFs & SITEHOUND: a toolkit for the identification of ligand-binding sites in protein structures.

D. Ghersi and R. Sanchez. Bioinformatics, 25, 3185-3186, 2009

SITEHOUND-web and the EasyMIFs and SITEHOUND applications are maintained by the Sanchez Lab, Department of Structural and Chemical Biology, Mount Sinai School of Medicine, New York, NY 10029. The original author of SiteHound-web is Marylens Hernandez, the main developer of EasyMIFs/SiteHound is Dario Ghersi.Please address all inquiries to

This material is based upon work supported by the National Science Foundation under Grant No. MCB 0517352 and by the National Institutes of Health under Grant No. GM081713.

"Any opinions, findings and conclusions or recomendations expressed in this material are those of the author(s) and do not necessarily reflect the views of the National Science Foundation (NSF) or the National Institutes of Health (NIH)."

Running SiteHound as a standalone program

SiteHound identifies protein regions that are likely to interact with ligands. The only input files required by SITEHOUND are the PDB file of the protein and the Molecular Interaction Field (MIFs) or Affinity Map for that protein structure structure.

EasyMIFs is provided as a tool to calculate MIFs, alternatively AutoGrid (part of the AutoDock suite developed by Arthur Olson’s group at The Scripps Research Insitute) or the SiteHound-web server can be used to produce Affinity maps or MIFs.

A python script named '' is provided in the package and can be used to perform binding site identification in a fully automated fashion. The script will prepare the protein PDB file, compute a Molecular Interaction Fields map with EasyMIFs and carry out binding site identification using SiteHound. It is also possible to use EasyMIFs and SiteHound separately.

For details consult the EasyMIFs/SITEHOUND manual or the README file in the package.

SITEHOUND & EasyMIFs Download

Current version: January 12, 2010

[Linux]                [Mac OS X]                [Windows]                Manual [html] [pdf]

These programs are distributed in the hope that they will be useful, but without any warranty; without even the implied warranty of merchantability or fitness for any purpose. The entire risk as to the quality and performance of the programs is with the user.

Distribution of the programs is allowed only with the author's written consent. Contact: