PPI3D database information

PDB release date2021-04-07
Number of PDB entries154705
Number of biological assemblies238177
Number of proteins546952
Number of peptides16841
Number of nucleic acids12658
Number of SCOPe domains188184


Number of protein-protein interaction interfaces557670
Clusters at sequence similarity > 95%64570
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%101308
Clusters at sequence similarity > 40%41272
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%79787
Clusters at sequence similarity > 40% and interface area similarity > 50%65189


Number of domain-domain interaction interfaces198159
Clusters at sequence similarity > 95%22478
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%36455
Clusters at sequence similarity > 40%13638
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%27352
Clusters at sequence similarity > 40% and interface area similarity > 50%23036


Number of all binding sites1220381
Clusters at sequence similarity > 95%51605
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%154146
Clusters at sequence similarity > 40%29863
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%113059
Clusters at sequence similarity > 40% and binding site area similarity > 50%94972


Number of protein-protein binding sites1115340
Clusters at sequence similarity > 95%50040
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%142886
Clusters at sequence similarity > 40%28910
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%104615
Clusters at sequence similarity > 40% and binding site area similarity > 50%88289


Number of protein-peptide binding sites21222
Clusters at sequence similarity > 95%3248
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%4375
Clusters at sequence similarity > 40%1955
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%3423
Clusters at sequence similarity > 40% and binding site area similarity > 50%2870


Number of protein-nucleic acid binding sites83819
Clusters at sequence similarity > 95%5115
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%7396
Clusters at sequence similarity > 40%3372
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%5623
Clusters at sequence similarity > 40% and binding site area similarity > 50%4766


Number of domain-domain binding sites396247
Clusters at sequence similarity > 95%18901
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%51863
Clusters at sequence similarity > 40%10731
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%36290
Clusters at sequence similarity > 40% and binding site area similarity > 50%31486