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
1.20.1710 MC6293 C9SYU4_6293 6-200 4-143 0.98 0.62 0.36 0.33 0.33 0.0 12.8
3.10.180 MC6291 A0A1Y3B1N1_6291 16-117 110-204 0.86 0.33 0.45 0.21 0.21 0.51 12.9
3.30.1900 MC6291 A0A2A4K3X2_6291 8-72 108-170 0.9 0.24 0.42 0.16 0.16 0.5 13.0
2.40.70 MC6274 A0A345UH84_6274 16-156 5-182 0.86 0.98 0.2 0.19 0.19 0.0 13.0
1.20.1440 MC6270 B7LVU7_6270 3-105 2-104 0.98 0.97 0.9 0.89 0.89 0.82 77.6
3.30.50 MC6265 A0A4U5NDW7_6265 1-78 27-104 1.0 0.28 0.99 0.27 0.27 0.99 87.1
1.20.910 MC6265 A0A7I8XHD6_6265 1-219 68-307 0.97 0.75 0.23 0.18 0.18 0.0 11.2
1.10.510 MC6265 W5NHJ0_6265 6-172 150-323 0.96 0.48 0.16 0.1 0.1 0.0 11.0
1.10.565 MC6265 A0A6I8P667_6265 1-202 110-311 1.0 0.57 0.99 0.56 0.56 0.95 67.8
3.30.1400 MC6249 A0A7I8DKV6_6249 5-134 1-118 0.93 0.9 0.49 0.51 0.51 0.4 8.5
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.