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
1.20.1000 MC8758 A0A6A4WZK6_8758 3-267 41-282 0.94 0.71 0.17 0.15 0.15 0.51 13.4
3.30.386 MC8749 L7U2F8_8749 5-83 39-107 0.83 0.63 0.52 0.45 0.45 0.5 18.7
1.10.246 MC8748 A0A655FX12_8748 8-60 4-55 0.83 0.91 0.71 0.79 0.79 0.71 20.0
6.20.20 MC8747 A0A1U9UQ51_8747 7-50 38-97 0.85 0.58 0.38 0.2 0.2 0.55 16.1
2.140.10 MC8737 A0A6B0H9R2_8737 43-441 30-535 0.9 0.94 0.1 0.09 0.09 0.0 9.1
2.130.10 MC8737 E0NKL0_8737 28-353 28-449 0.92 0.92 0.13 0.11 0.11 0.0 6.6
1.10.3860 MC8736 A0A7Y4XAC2_8736 44-403 2-353 0.89 0.99 0.79 0.9 0.9 0.7 32.7
1.20.1160 MC8734 H2ZQQ7_8734 1-85 1-85 0.97 0.85 0.33 0.3 0.3 0.52 8.9
6.20.270 MC8730 A0A7N9CFJ6_8730 1-59 55-128 0.98 0.58 0.96 0.46 0.46 0.97 77.0
3.30.519 MC8729 A0A384AGI0_8729 3-64 78-140 0.8 0.29 0.53 0.21 0.21 0.53 14.4
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.