A server for the prediction of protein interaction sites on the surface of protein structures.

  Click for information on:
  ¤ Background Theory
  ¤ Protein Type
  ¤ Patch Parameters
  ¤ Combined Score
  ¤ References

Get help submitting structures and making predictions:
  ¤ HELP Page
  ¤ Example Results

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  Last Update: 04/05/2007

Introduction to the Protein-Protein Interaction Server

SHARP² predicts the location of protein interaction sites on the surface of the 3D structure of a protein. A series of surface residue patches are defined and a maximum of 6 parameters are calculated for each. The parameters calculated are Solvation Potential(S), Hydrophobicity(H), Accessible Surface Area(A), Residue Interface Propensity(R) , Protrusion(P), and Planarity(P).

A combined parameter score is calculated for each patch and the patches with the highest scores are predicted to be potential protein interaction sites. The size of the surface patch and the combined score definition is dependent on the size and nature of the potential interacting partner.

Make a prediction for a protein structure

Enter PDB entry ID (e.g. 1cdt):
Enter chain ID (e.g. A):
Select protein type :
Type A : Interacting partner is an identical protein
Type B : Interacting partner is a different protein that is larger
Type C : Interacting partner is a differenct protein that is smaller
Type D : Interacting partner is an antibody
Enter patch size :
Enter best patch cut-off (default:10) :

Option A: Choose your own parameter settings:

Ssp - Solvation Potential :
Shy - Hydrophobicity :
Sasa - Accessible Surface Area :
Srp - Residue Interface Propensity :
Spi - Protrusion :
Spl - Planarity :

Option B: Make Multiple Predictions :

Set up a single parameter set
Set up multiple parameter sets (Maximum: 5 sets permitted)

Option C: Upload your own coordinates file:

Use your own coordinates file:

Option D: Receive Results via Email:

Receive your result via E-MAIL@

The SHARP2 is operated by Bioinformatics Research Group,
Department of Biochemistry, School of Life Sciences, University of Sussex.
©SHARP2 Any technical problems, please contact: Dr Sue Jones