PPI3D database information

PDB release date2022-09-28
Number of PDB entries173824
Number of biological assemblies263496
Number of proteins646556
Number of peptides19336
Number of nucleic acids15638
Number of SCOPe domains188370


Number of protein-protein interaction interfaces699349
Clusters at sequence similarity > 95%78558
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%124088
Clusters at sequence similarity > 40%48992
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%97587
Clusters at sequence similarity > 40% and interface area similarity > 50%76972


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 sites1534675
Clusters at sequence similarity > 95%58997
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%191263
Clusters at sequence similarity > 40%33228
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%138281
Clusters at sequence similarity > 40% and binding site area similarity > 50%113679


Number of protein-protein binding sites1398698
Clusters at sequence similarity > 95%57183
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%176581
Clusters at sequence similarity > 40%32166
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%127599
Clusters at sequence similarity > 40% and binding site area similarity > 50%105466


Number of protein-peptide binding sites24622
Clusters at sequence similarity > 95%3714
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%5039
Clusters at sequence similarity > 40%2191
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%3911
Clusters at sequence similarity > 40% and binding site area similarity > 50%3230


Number of protein-nucleic acid binding sites111355
Clusters at sequence similarity > 95%6829
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%10275
Clusters at sequence similarity > 40%4182
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%7513
Clusters at sequence similarity > 40% and binding site area similarity > 50%6151


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