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
2.20.60 MC7089 A0A1B6GKH3_7089 1-54 75-127 0.95 0.36 0.29 0.13 0.13 0.55 23.2
2.20.28 MC7089 A0A1X7V7X2_7089 1-26 1-26 1.0 0.21 0.84 0.21 0.21 0.87 34.6
2.10.60 MC7088 A0A673JSW6_7088 1-91 1-91 1.0 0.97 0.98 0.95 0.95 0.96 85.7
1.10.3590 MC7086 A0A498MKZ5_7086 13-88 1-136 0.86 0.38 0.83 0.21 0.21 0.76 39.7
2.60.470 MC7086 A0A3M7SJD8_7086 1-178 1-374 1.0 0.88 0.87 0.38 0.38 0.71 13.6
3.30.67 MC7076 A0A7U9RTB6_7076 2-76 9-88 0.99 0.91 0.51 0.46 0.46 0.53 16.6
2.30.90 MC7076 A0A3R6TWM5_7076 1-42 8-45 0.98 0.51 0.55 0.36 0.36 0.65 21.4
3.10.50 MC7071 A0A559IQD1_7071 2-73 13-125 0.97 0.35 0.77 0.2 0.2 0.7 17.3
3.40.1520 MC7069 A0A5P9XSG7_7069 2-101 6-110 0.99 0.76 0.52 0.4 0.4 0.44 10.4
3.30.1740 MC7065 A0A6P2FYI3_7065 11-94 6-80 0.83 0.88 0.4 0.46 0.46 0.51 14.2
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.