PPI3D database information

PDB release date2024-03-20
Number of PDB entries193768
Number of biological assemblies290541
Number of proteins753265
Number of peptides21696
Number of nucleic acids18738
Number of SCOPe domains188370


Number of protein-protein interaction interfaces745572
Clusters at sequence similarity > 95%79974
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%129641
Clusters at sequence similarity > 40%49958
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%103728
Clusters at sequence similarity > 40% and interface area similarity > 50%79106


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%23052


Number of all binding sites1870104
Clusters at sequence similarity > 95%66124
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%229884
Clusters at sequence similarity > 40%36568
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%166730
Clusters at sequence similarity > 40% and binding site area similarity > 50%135390


Number of protein-protein binding sites1491144
Clusters at sequence similarity > 95%55497
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%185736
Clusters at sequence similarity > 40%31050
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%136886
Clusters at sequence similarity > 40% and binding site area similarity > 50%111039


Number of protein-peptide binding sites27589
Clusters at sequence similarity > 95%4137
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%5722
Clusters at sequence similarity > 40%2434
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%4450
Clusters at sequence similarity > 40% and binding site area similarity > 50%3653


Number of protein-nucleic acid binding sites136791
Clusters at sequence similarity > 95%8053
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%12721
Clusters at sequence similarity > 40%4646
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%9024
Clusters at sequence similarity > 40% and binding site area similarity > 50%7169


Number of domain-domain binding sites396642
Clusters at sequence similarity > 95%18911
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%51888
Clusters at sequence similarity > 40%10738
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%36292
Clusters at sequence similarity > 40% and binding site area similarity > 50%31485