SPServer
Introduction (click to show/hide)

The Split-Statistical Potentials Server (SPServer) is a tool designed to assess the quality of structural models of protein folds or protein-protein interactions using the so-called Split-Statistical Potentials.

A detailed explanation on how to execute the server and interpret the results is found in the sections Help and Tutorials.

More information about Split-Statistical Potentials can be found in the About SPServer and FAQ subsections of Help and the article of Aguirre-Plans J, et al. BMC Bioinformatics (2021).

Quick start guide (click to show/hide):
1. Analysis to run: Select which type of structure do you want to assess:
  • Protein folds: Assess the quality of the structural model of a protein.
  • Protein-protein interactions: Assess the quality of the structural model of the interaction between two proteins.
2. Contact definition: Select the definition of contact between two residues:
  • CB-CB distance < 12A: A distance between two beta-carbons of two residues below 12 angstroms.
  • Minimum residue-residue distance < 5A: A distance between any of the atoms of two residues below 5 angstroms.
3. Upload the structure(s):
  • Protein folds: Upload the structure files. The files can be in PDB / mmCIF formats or a compressed folder in .zip / .tar.gz. formats
  • Protein-protein interactions: There are two possibilities:
    • Uncompressed file: Upload the protein-protein interaction files to analyze. Indicate the chains to be analyzed: one corresponding to the receptor, and the other to the ligand.
    • Compressed file (interacting proteins in separated files): Upload a compressed folder with the PPI PDBs to analize, indicating wich one is the receptor (.r.pdb) and the ligand (.l.pdb). The folder must be compressed in .zip or .tar.gz.

Analysis set-up



Input file(s)

IMPORTANT: Due to computational resoure limitations, the input files cannot exeed 10MB.

  File:  
   Add structure
Submit structures in: PDB or mmCIF formats.
Or submit a compressed file in: .zip, .tar.gz or .tgz formats.
Do not include "#" in the names of the files!

 Click here to use an example with precalculated data.
 Click here to download an example of input data.
IMPORTANT: Due to computational resource limitations, the input files cannot exeed 10MB.



  Receptor chain:   Ligand chain:   File:  
   Add structure
The file must contain the protein structure of the interaction in PDB or mmCIF format.
The user has to indicate the chains of the file corresponding to the receptor and the ligand.
Do not include "#" in the names of the files!

 Click here to use an example with precalculated data.
 Click here to download an example of input data.


The file must contain pairs of protein structures in PDB or mmCIF format.
Every pair of structures must have the same name, but a suffix that indicates if it is receptor or ligand: .r.pdb or .l.pdb. Any other files will be discarted
The file must be compressed in: .zip, .tar.gz or .tgz formats.

 Click here to use an example with precalculated data.
 Click here to download an example of input data.