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
3.60.110 MC10626 M7YN42_10626 16-275 1-260 0.87 1.0 0.87 0.99 0.99 0.93 81.9
3.30.2200 MC1055 D2RHK3_1055 3-85 8-124 0.88 0.94 0.33 0.26 0.26 0.52 13.5
1.10.3470 MC10405 A0A6A5KV39_10405 14-304 3-293 0.9 0.99 0.87 0.96 0.96 0.87 75.6
2.60.410 MC10404 A0A1A9Z0V1_10404 2-93 67-158 0.99 0.54 0.97 0.54 0.54 0.95 44.5
2.20.110 MC1032 A0A7I8I8P5_1032 1-109 37-129 0.95 0.27 0.53 0.2 0.2 0.57 20.0
3.30.800 MC1032 A0A444UBX6_1032 1-162 1-171 1.0 0.5 0.99 0.47 0.47 0.96 91.2
3.30.810 MC1032 A0A803JVP9_1032 2-139 167-371 0.99 0.55 0.96 0.36 0.36 0.92 50.2
1.10.3400 MC10272 A0A0J7KQP8_10272 2-101 33-144 0.85 0.36 0.47 0.23 0.23 0.53 10.6
2.60.340 MC10263 A0A0F9W3I6_10263 1-165 7-128 1.0 0.95 0.53 0.66 0.66 0.5 10.5
3.10.560 MC1023 A0A7Z8VK77_1023 18-93 132-198 0.82 0.26 0.54 0.21 0.21 0.6 13.9
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.