PI2PE: Protein Interface/Interior Prediction Engine

News: Zhou team (ID P71) ranks number 1 in latest round of CAPRI! (see CAPRI11 results or summary of best predictions). Read story in FSU NEWS.

PI²PE consists of three predictors, developed by the Zhou group at FSU. All the three predictors are based on position-specific sequence profiles, which are generated by running PSI-blast (blast release 2.2.13) on the non-redundant protein sequence database (nr; 3,625,149 entries; May 2006 release). Click a flag below to access the predictor. Please cite:
Tjong, H.; Qin, S.B.; and Zhou, H.-X. (2007) PI²PE: Protein Interface/Interior Prediction Engine. Nucl. Acids Res. 35, W357-W362.
for using the web servers and cite papers listed under the three servers for methods.

WESA is a meta-predictor, based a Weighted Ensemble of five methods, for Solvent Accessibility of residues from protein sequences. It has an expected accuracy of 80%. The prediction can be used for structure prediction.

cons-PPISP is a consensus neural-network Protein-Protein Interaction Site Predictor. The input is the unbound structure of a protein, which is known to bind another protein. The prediction can be used to drive docking of the protein-protein complex or to assist the scoring of docked structures.

meta-PPISP is built on three individual web servers: cons-PPISP, PINUP, and Promate. Cross validation showed that meta-PPISP outperforms all the three individual servers. At coverages indentical to those of the individual methods, the accuracy of meta-PPISP is higher by 4.8 to 18.2 percentage points.

DISPLAR is a DNA-Interaction Site Predictor, with data such as sequence profiles of a List of Adjacent Residues as input. The predictions of cons-PPISP and DISPLAR can be used to build structural models for multi-component protein-DNA complexes.