PPI3D database information

PDB release date2024-04-17
Number of PDB entries194739
Number of biological assemblies291766
Number of proteins757900
Number of peptides21810
Number of nucleic acids18837
Number of SCOPe domains188370


Number of protein-protein interaction interfaces752209
Clusters at sequence similarity > 95%80490
Clusters at sequence similarity > 95% and interface residue contacts similarity > 50%130761
Clusters at sequence similarity > 40%50243
Clusters at sequence similarity > 40% and interface residue contacts similarity > 50%104654
Clusters at sequence similarity > 40% and interface area similarity > 50%79730


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 sites1884156
Clusters at sequence similarity > 95%66440
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%231659
Clusters at sequence similarity > 40%36718
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%168047
Clusters at sequence similarity > 40% and binding site area similarity > 50%136357


Number of protein-protein binding sites1504418
Clusters at sequence similarity > 95%55810
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%187443
Clusters at sequence similarity > 40%31198
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%138162
Clusters at sequence similarity > 40% and binding site area similarity > 50%111981


Number of protein-peptide binding sites27766
Clusters at sequence similarity > 95%4156
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%5751
Clusters at sequence similarity > 40%2443
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%4474
Clusters at sequence similarity > 40% and binding site area similarity > 50%3669


Number of protein-nucleic acid binding sites137392
Clusters at sequence similarity > 95%8075
Clusters at sequence similarity > 95% and residue interface areas similarity > 50%12763
Clusters at sequence similarity > 40%4652
Clusters at sequence similarity > 40% and residue interface areas similarity > 50%9046
Clusters at sequence similarity > 40% and binding site area similarity > 50%7183


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