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
3.90.79 MC7324 A0A3S4X001_7324 7-123 1-117 0.95 0.84 0.94 0.83 0.83 0.95 69.2
2.30.42 MC7320 A0A7R9L2E9_7320 1-74 5-71 0.89 0.62 0.56 0.44 0.44 0.55 30.6
3.30.2180 MC7311 A0A7V8JFU9_7311 9-61 1-50 0.84 0.96 0.43 0.51 0.51 0.52 17.2
3.40.980 MC7310 A0A0N4UJK6_7310 22-167 10-138 0.81 0.94 0.42 0.52 0.52 0.41 13.8
1.10.45 MC73 A0A512D188_73 2-38 26-62 0.97 0.6 0.89 0.57 0.57 0.87 48.6
6.20.140 MC7299 A0A847U8L0_7299 2-41 28-76 0.95 0.47 0.72 0.33 0.33 0.8 12.2
3.30.720 MC7294 S7N4J9_7294 1-76 1-94 1.0 0.96 0.98 0.76 0.76 0.97 74.4
1.10.720 MC7289 A0A183J4U3_7289 5-45 112-154 0.87 0.27 0.76 0.24 0.24 0.75 13.9
6.10.30 MC7257 A0A7D5K326_7257 3-58 80-133 0.86 0.39 0.34 0.18 0.18 0.51 19.6
1.20.272 MC7252 C9SKT2_7252 1-117 84-205 1.0 0.41 0.88 0.36 0.36 0.82 46.4
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.