SiteHound-web identifies ligand binding sites by computing interactions between a chemical probe and a protein structure. The input is a PDB file of a protein structure, the output is a list of “interaction energy clusters” corresponding to putative binding sites. Selecting a different chemical probe results in the identification of a different type of binding site.


For details see:

Hernandez et al., NAR, 37:W413, 2009.

Ghersi & Sanchez, Proteins, 74:417, 2009.

Ghersi & Sanchez, Bioinformatics, 25:3185, 2009.


A standalone version of SITEHOUND and instruction manual can de downloaded here.


Maintenance 5/9/10 : Minor changes were made. Several proteins that failed to produce results before should run fine now.


Note: Java needs to be enabled in your browser for the Jmol applet to work in the results page.



Users of SiteHound-web are requested to cite this article in their publications:

SITEHOUND-web: a server for ligand binding site identification in protein structures.

M. Hernandez, D. Ghersi and R. Sanchez, Nuc. Acids. Res., 17, W413-W416, 2009.


SITEHOUND-web is maintained by Marylens Hernandez, the EasyMIFs and SITEHOUND applications are maintained by Dario Ghersi, both in the group of Roberto Sanchez, Department of Structural and Chemical Biology, Mount Sinai School of Medicine, New York, NY 10029. Please address all inquiries to sitehound@sanchezlab.org.


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)."