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
2.20.100 MC6536 A0A7J4UPF1_6536 1-52 1-42 0.91 0.38 0.45 0.26 0.26 0.54 25.0
1.10.274 MC6535 A0A842QVP5_6535 16-121 45-166 0.83 0.7 0.38 0.29 0.29 0.52 10.0
3.30.40 MC6526 I1CA66_6526 3-51 117-165 0.96 0.3 0.84 0.28 0.28 0.82 51.0
3.40.20 MC6520 A0A0D8XCM8_6520 9-134 15-153 0.94 0.81 0.23 0.2 0.2 0.0 12.2
3.30.250 MC6511 A0A3T0KI41_6511 11-65 7-64 0.85 0.88 0.49 0.48 0.48 0.55 10.3
3.40.850 MC6483 A0A3E3E9V5_6483 24-260 3-134 0.88 0.81 0.1 0.16 0.16 0.0 10.5
2.30.29 MC6483 A0A0R2EXN8_6483 18-91 35-126 0.81 0.61 0.73 0.45 0.45 0.67 14.1
6.20.180 MC6481 A0A415M7F1_6481 3-62 1-63 0.8 1.0 0.28 0.32 0.32 0.52 12.1
3.60.20 MC6477 A0A2U8VP04_6477 2-166 3-184 0.84 0.99 0.19 0.2 0.2 0.0 7.4
2.40.110 MC6474 A0A445FTA0_6474 10-135 55-180 0.93 0.41 0.18 0.1 0.1 0.0 8.1
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.