The Patch Finder Plus
PFplus Server

PFplus is an automatic server to extract and display the largest positive electrostatic patch on a protein surface.

You can submit a coordinate file of your own protein (in PDB format) or request an analysis on a known protein supplying a PDB code. The largest positive patch on the protein surface will be calculated for each protein chain separately. A description of the PFplus algorithm for extracting positive patches is given here. Your results will be provided as: 1. An output file containing the list of all residues in the largest patch in a PDB format. 2. A Jmol script for displaying the patch. 3. The largest positive patch of a representative protein chain will be displayed by the jmol viewer.

NOTE! For proper display of the protein in jmol, you must have java and javascript installed on your computer, and the java plugin installed on your web browser. For more information about jmol, see http://jmol.sourceforge.net/.

Please enter a PDB-ID Code of the protein you want to analyze:    Alternatively, you can upload or enter your own data in PDB format (only ATOM records are required):

Reference : Annotating Nucleic Acid-Binding Function Based on Protein Structure Eric W. Stawiski, Lydia M. Gregoret and Yael Mandel-Gutfreund J. Mol. Biol. (2003) 326, 1065-1079 Full text Article in PDF format

The PFplus Server was developed by: Shula Shazman, Gershon Celniker, Omer Haber and Igal Rubinstein. Original Patch Finder code was written by: Eric W.Stawiski and Yael Mandel-Gutfreund.

Yael Mandel-Gutfreund Lab Computational Molecular Biology Faculty of Biology, Technion Haifa Israel

If you have any question feel free to contact me at shulas@tx.technion.ac.il