eFindSitePPI Webserver

eFindSitePPI detects protein binding sites and residues using meta-threading. It also predicts interfacial geometry and specific interactions stabilizing protein-protein complexes, such as hydrogen bonds, salt bridges, aromatic and hydrophobic interactions.
If you use eFindSitePPI, please cite the following paper:

eFindSitePPI is also available as a standalone software distribution. Datasets are available for download from here. See the manual for the details on the output file format.

eFindSitePPI is free of charge under the terms of GNU General Public License for non-commercial use. It is distributed without any warranty, but with best wishes.

This server is running eFindSitePPI v1.1. Click here to see some sample results.


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Select New submission to run eFindSitePPI for your target structure. If you have constructed a protein model using our eThread webserver, select Use eThread model to run eFindSitePPI for the eThread model.


3-10 alphanumerical characters.


Single chain in PDB format, 50-999 residues.


Provide the ticket for your eThread submission. Make sure that you can still access your eThread results at our website.


eThread model number (1 is typically the best one). Make sure that the model exists.


Type of interface to predict.


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© Michal Brylinski
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