DPCstruct Metaclusters

⬡ Domain Classification in Structural Space
Properties CATH SCOP

The DPCstruct pipeline applied the Density Peak Clustering (DPC) algorithm to roughly 15 million representative AlphaFold2- predicted structures from the Foldseek Cluster database (a representative set of the AlphaFold Database, AlphaFoldDB v4.0), producing 28,246 structural metaclusters without any manual annotation. Because protein structure is more conserved than sequence over evolutionary time, DPCstruct recovers remote homologs, including proteins sharing a common fold at less than 30% sequence identity, that purely sequence-based methods typically miss.

Use the toggle buttons to switch between the Properties view (intrinsic structural metrics and Pfam annotations), the CATH fold annotations, or the SCOP fold annotations. Click any MCID to open its detail page, where you can explore the sequences and launch the integrated PDBe-Mol* 3D viewer.

CATH Fold MCID DPC Target Q.Range T.Range Q.Cov T.Cov Q.TM-Score T.TM-Score A.TM-Score lDDT pIdent
3.40.960 MC4782 A0A7L4YC18_4782 1-96 173-286 0.98 0.39 0.84 0.3 0.3 0.76 17.5
3.30.1200 MC47764 A0A523F1E9_47764 3-89 3-87 0.81 0.94 0.68 0.8 0.8 0.7 27.5
3.30.2070 MC47564 A0A7V4PLQ6_47564 1-55 56-138 0.9 0.59 0.71 0.34 0.34 0.65 15.2
3.30.10 MC4736 A0A5N9VVS7_4736 1-66 6-71 1.0 0.86 0.99 0.85 0.85 0.99 100.0
2.30.22 MC4721 A0A496AH06_4721 1-57 391-450 1.0 0.13 0.86 0.12 0.12 0.78 22.9
3.30.1880 MC4718 A0A1M2V4S8_4718 3-65 46-135 0.96 0.16 0.64 0.1 0.1 0.54 10.0
3.30.1410 MC4708 A0A2Z6CF30_4708 2-83 158-208 0.98 0.11 0.46 0.09 0.09 0.56 8.3
3.30.2230 MC46904 A0A6J5VEL8_46904 1-118 12-156 1.0 0.31 0.83 0.23 0.23 0.73 27.7
3.40.1310 MC4689 A0A2H0FNW3_4689 1-159 1-92 0.82 0.99 0.31 0.51 0.51 0.34 10.0
1.10.3330 MC46771 A0A4X1TMK5_46771 1-168 2-169 1.0 0.98 0.99 0.97 0.97 0.96 51.7
Legend
  • Agreement between CATH Folds and DPCstruct Metacluster Domains:
  • CATH Fold: CATH fold identifier.
  • MCID: DPCstruct metacluster identifier.
  • DPC Target: Target DPCstruct protein domain.
  • Q./T.Range: Amino acid coordinate ranges for query and target.
  • Q./T.Cov: Coverage metrics indicating how much of each domain was covered in the alignment.
  • A.TM-Score: Template Modeling score of the structural alignment (0-1).
  • lDDT: Local Distance Difference Test score.
  • pIdent: Percent sequence identity between query and target.