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
3.30.1520 MC5819 A0A0A2W271_5819 2-132 5-143 0.99 0.85 0.99 0.8 0.8 0.98 80.5
3.90.1100 MC58138 K9IBL6_58138 64-324 56-398 0.8 0.65 0.62 0.38 0.38 0.67 40.2
1.10.1500 MC58107 A0A3D3S5K7_58107 1-119 60-195 0.99 0.45 0.94 0.38 0.38 0.87 31.3
1.10.3350 MC58087 A0A7J7QU91_58087 1-167 69-235 1.0 0.5 0.97 0.49 0.49 0.96 84.4
4.10.1290 MC5799 G3U256_5799 1-34 46-79 0.97 0.28 0.76 0.25 0.25 0.78 76.4
3.30.1850 MC5788 A0A1F2SD73_5788 3-113 48-166 0.98 0.71 0.24 0.19 0.19 0.0 12.3
4.10.95 MC57790 A0A6A4XD64_57790 13-83 9-79 0.86 0.88 0.84 0.86 0.86 0.93 56.3
1.10.3820 MC57766 V2QDG0_57766 3-132 16-142 0.9 0.32 0.5 0.2 0.2 0.54 19.1
3.90.245 MC57714 A0A2G1W161_57714 1-300 26-331 1.0 0.88 0.98 0.85 0.85 0.93 58.4
3.30.1220 MC5768 A0A7C2B493_5768 20-114 1-84 0.82 0.97 0.41 0.52 0.52 0.41 9.7
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.