PPI3D database information

PDB release date2021-09-08
Number of PDB entries161585
Number of biological assemblies247044
Number of proteins593072
Number of peptides17699
Number of nucleic acids13903
Number of SCOPe domains188370


Number of protein-protein interaction interfaces629506
Clusters at sequence similarity > 95%70857
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%111768
Clusters at sequence similarity > 40%44759
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%87953
Clusters at sequence similarity > 40% and interface area similarity > 50%70371


Number of domain-domain interaction interfaces198415
Clusters at sequence similarity > 95%22501
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%36495
Clusters at sequence similarity > 40%13657
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%27393
Clusters at sequence similarity > 40% and interface area similarity > 50%23057


Number of all binding sites1380502
Clusters at sequence similarity > 95%54798
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%170555
Clusters at sequence similarity > 40%31353
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%123306
Clusters at sequence similarity > 40% and binding site area similarity > 50%102142


Number of protein-protein binding sites1259012
Clusters at sequence similarity > 95%53141
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%157610
Clusters at sequence similarity > 40%30369
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%113766
Clusters at sequence similarity > 40% and binding site area similarity > 50%94737


Number of protein-peptide binding sites22330
Clusters at sequence similarity > 95%3408
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%4605
Clusters at sequence similarity > 40%2039
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%3578
Clusters at sequence similarity > 40% and binding site area similarity > 50%2984


Number of protein-nucleic acid binding sites99160
Clusters at sequence similarity > 95%6031
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%8922
Clusters at sequence similarity > 40%3793
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%6639
Clusters at sequence similarity > 40% and binding site area similarity > 50%5495


Number of domain-domain binding sites396758
Clusters at sequence similarity > 95%18915
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%51913
Clusters at sequence similarity > 40%10740
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%36316
Clusters at sequence similarity > 40% and binding site area similarity > 50%31499