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
3.30.457 MC8881 A0A834HPF1_8881 6-86 22-121 0.93 0.78 0.62 0.45 0.45 0.58 7.7
2.70.9 MC8865 A0A537F8B4_8865 21-221 3-104 0.88 0.95 0.28 0.51 0.51 0.33 10.3
4.10.1000 MC8859 A0A820V2G9_8859 5-58 64-108 0.9 0.33 0.32 0.19 0.19 0.53 23.6
3.40.1810 MC8849 A0A1L9NKJ7_8849 2-71 12-80 0.99 0.52 0.35 0.21 0.21 0.56 18.0
3.90.209 MC8845 A0A0Q8GLF2_8845 25-209 190-335 0.86 0.43 0.16 0.12 0.12 0.0 8.1
1.20.1260 MC8813 A0A1V5IKY9_8813 1-139 241-383 0.88 0.37 0.66 0.29 0.29 0.61 12.7
1.20.1200 MC8813 A0A840PCH1_8813 2-132 72-203 0.92 0.31 0.53 0.2 0.2 0.47 13.6
1.10.760 MC8782 E6PQB7_8782 2-61 132-185 0.95 0.29 0.71 0.26 0.26 0.66 20.0
3.30.1650 MC8781 A0A523S7B3_8781 13-171 1-159 0.9 1.0 0.89 0.98 0.98 0.87 52.8
1.10.1060 MC8780 A0A7T8XIW5_8780 2-127 15-153 0.96 0.91 0.53 0.47 0.47 0.48 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.