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
1.10.150 MC7244 A0A4X1STP6_7244 3-77 41-115 0.97 0.63 0.95 0.62 0.62 0.92 60.0
1.10.442 MC7241 A0A103XLS1_7241 24-139 87-189 0.81 0.44 0.19 0.13 0.13 0.52 16.8
1.20.1110 MC7238 A0A3L6V8S9_7238 39-399 52-385 0.88 0.86 0.16 0.17 0.17 0.0 11.7
2.60.310 MC7227 A0A7X7IJV3_7227 7-104 18-125 0.93 0.43 0.52 0.25 0.25 0.49 13.7
3.10.110 MC7223 M2WT23_7223 3-112 415-552 0.97 0.24 0.64 0.15 0.15 0.56 10.9
3.90.810 MC7219 A0A7J8H3P0_7219 1-70 78-147 1.0 0.46 0.91 0.43 0.43 0.94 100.0
2.170.150 MC7212 A0A518DHJ9_7212 16-146 8-84 0.82 0.79 0.27 0.4 0.4 0.0 6.8
3.100.10 MC7199 S7VUT0_7199 1-63 126-204 0.84 0.3 0.54 0.18 0.18 0.52 9.4
2.150.10 MC7192 A0A8B2NU44_7192 12-218 223-410 0.91 0.46 0.67 0.38 0.38 0.68 29.2
3.10.130 MC7187 A0A2K4ZGI6_7187 21-126 7-94 0.84 0.85 0.24 0.27 0.27 0.0 13.1
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.