PPI3D database information

PDB release date2023-04-12
Number of PDB entries180672
Number of biological assemblies273503
Number of proteins687575
Number of peptides20182
Number of nucleic acids16738
Number of SCOPe domains188370


Number of protein-protein interaction interfaces765595
Clusters at sequence similarity > 95%84140
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%133696
Clusters at sequence similarity > 40%52197
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%104813
Clusters at sequence similarity > 40% and interface area similarity > 50%81834


Number of domain-domain interaction interfaces198386
Clusters at sequence similarity > 95%22495
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%36486
Clusters at sequence similarity > 40%13653
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%27386
Clusters at sequence similarity > 40% and interface area similarity > 50%23051


Number of all binding sites1679361
Clusters at sequence similarity > 95%61824
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%207968
Clusters at sequence similarity > 40%34566
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%150541
Clusters at sequence similarity > 40% and binding site area similarity > 50%123117


Number of protein-protein binding sites1531190
Clusters at sequence similarity > 95%59923
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%191697
Clusters at sequence similarity > 40%33465
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%138839
Clusters at sequence similarity > 40% and binding site area similarity > 50%114146


Number of protein-peptide binding sites25811
Clusters at sequence similarity > 95%3909
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%5351
Clusters at sequence similarity > 40%2306
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%4153
Clusters at sequence similarity > 40% and binding site area similarity > 50%3423


Number of protein-nucleic acid binding sites122360
Clusters at sequence similarity > 95%7627
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%11584
Clusters at sequence similarity > 40%4549
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%8333
Clusters at sequence similarity > 40% and binding site area similarity > 50%6780


Number of domain-domain binding sites396700
Clusters at sequence similarity > 95%18911
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%51900
Clusters at sequence similarity > 40%10738
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%36304
Clusters at sequence similarity > 40% and binding site area similarity > 50%31492