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
2.30.180 MC271 A0A812IYJ2_271 4-134 2-131 0.97 0.99 0.89 0.92 0.92 0.8 43.5
1.10.3670 MC2708 A0A2C8Y6M6_2708 13-108 4-100 0.83 0.89 0.77 0.81 0.81 0.75 29.8
3.20.110 MC2686 A0A377J4E1_2686 1-280 1-299 1.0 0.92 0.22 0.2 0.2 0.0 10.0
6.10.260 MC2686 A0A0L7KXY0_2686 7-90 71-145 0.93 0.25 0.7 0.22 0.22 0.75 38.8
3.40.718 MC2686 A0A251XLK2_2686 5-347 78-388 0.99 0.8 0.22 0.2 0.2 0.0 14.3
1.10.3380 MC26581 A0A1Q2YFS3_26581 32-219 25-280 0.82 0.91 0.59 0.5 0.5 0.46 9.7
3.90.1020 MC26388 A0A662FZS5_26388 1-63 1-106 0.9 0.6 0.7 0.3 0.3 0.61 21.6
3.40.1630 MC2635 A0A077ZGN6_2635 1-53 1-83 0.98 0.63 0.53 0.28 0.28 0.51 13.0
6.20.190 MC2635 A0A2Z2NXC9_2635 9-57 99-146 0.8 0.31 0.43 0.19 0.19 0.58 14.5
2.20.160 MC2635 A0A829XXF6_2635 4-81 101-177 0.93 0.35 0.32 0.15 0.15 0.51 6.8
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.