PPI3D database information

PDB release date2023-01-25
Number of PDB entries177955
Number of biological assemblies269710
Number of proteins663946
Number of peptides19831
Number of nucleic acids16140
Number of SCOPe domains188370


Number of protein-protein interaction interfaces723628
Clusters at sequence similarity > 95%81044
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%128085
Clusters at sequence similarity > 40%50503
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%100861
Clusters at sequence similarity > 40% and interface area similarity > 50%79343


Number of domain-domain interaction interfaces198403
Clusters at sequence similarity > 95%22501
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%36493
Clusters at sequence similarity > 40%13657
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%27392
Clusters at sequence similarity > 40% and interface area similarity > 50%23057


Number of all binding sites1585883
Clusters at sequence similarity > 95%60352
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%197958
Clusters at sequence similarity > 40%33908
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%143300
Clusters at sequence similarity > 40% and binding site area similarity > 50%117563


Number of protein-protein binding sites1447256
Clusters at sequence similarity > 95%58500
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%182741
Clusters at sequence similarity > 40%32819
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%132187
Clusters at sequence similarity > 40% and binding site area similarity > 50%109022


Number of protein-peptide binding sites25289
Clusters at sequence similarity > 95%3831
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%5207
Clusters at sequence similarity > 40%2252
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%4035
Clusters at sequence similarity > 40% and binding site area similarity > 50%3327


Number of protein-nucleic acid binding sites113338
Clusters at sequence similarity > 95%7026
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%10659
Clusters at sequence similarity > 40%4317
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%7841
Clusters at sequence similarity > 40% and binding site area similarity > 50%6413


Number of domain-domain binding sites396734
Clusters at sequence similarity > 95%18915
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%51912
Clusters at sequence similarity > 40%10740
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%36315
Clusters at sequence similarity > 40% and binding site area similarity > 50%31499