Welcome to PPI3D − a web server for searching, analyzing and modeling protein interactions in the context of 3D structures
Using the PPI3D server you can:
- Search for all the interactions involving your query protein(s) using single-sequence search;
- Search for interactions between a pair of proteins (protein groups) using two-sequences search;
- Query all binary protein interactions in a single PDB entry;
- Get detailed information on protein interaction interfaces of detected structures;
- Model 3D structures of binary protein interactions using the identified structures as templates.
This website is free and open to all users and there is no login requirement.
For more information visit the Help page or Tutorial.
If you find PPI3D useful, please cite the following article:
- Dapkūnas J, Timinskas A, Olechnovič K, Tomkuvienė M, Venclovas Č. PPI3D: a web server for searching, analyzing and modeling protein-protein, protein-peptide and protein-nucleic acid interactions. Nucleic Acids Res, 2024, DOI: 10.1093/nar/gkae278, PMID: 38619046.
Additional PPI3D references may be found in the Help page.
Clustered PPI3D data are licensed under the CC BY 4.0
licence.
The database depends on the Protein Data Bank, therefore the users are encouraged to also cite PDB publications when using the PPI3D datasets.