PPI3D database information

PDB release date2022-05-18
Number of PDB entries169399
Number of biological assemblies257539
Number of proteins631241
Number of peptides18694
Number of nucleic acids15196
Number of SCOPe domains188370


Number of protein-protein interaction interfaces682275
Clusters at sequence similarity > 95%76509
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%120732
Clusters at sequence similarity > 40%48023
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%94988
Clusters at sequence similarity > 40% and interface area similarity > 50%75238


Number of domain-domain interaction interfaces198406
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 sites1497780
Clusters at sequence similarity > 95%57623
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%185866
Clusters at sequence similarity > 40%32650
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%134501
Clusters at sequence similarity > 40% and binding site area similarity > 50%110898


Number of protein-protein binding sites1364550
Clusters at sequence similarity > 95%55871
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%171634
Clusters at sequence similarity > 40%31620
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%124127
Clusters at sequence similarity > 40% and binding site area similarity > 50%102909


Number of protein-peptide binding sites23718
Clusters at sequence similarity > 95%3596
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%4864
Clusters at sequence similarity > 40%2139
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%3778
Clusters at sequence similarity > 40% and binding site area similarity > 50%3137


Number of protein-nucleic acid binding sites109512
Clusters at sequence similarity > 95%6625
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%9982
Clusters at sequence similarity > 40%4068
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%7315
Clusters at sequence similarity > 40% and binding site area similarity > 50%5994


Number of domain-domain binding sites396740
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