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
3.90.1300 MC42777 A0A4R3N427_42777 57-413 19-259 0.86 0.93 0.13 0.18 0.18 0.0 14.5
1.10.790 MC42484 A0A4Q0MC27_42484 6-102 2-124 0.92 0.98 0.23 0.2 0.2 0.51 12.6
3.90.1160 MC4229 G6XIS2_4229 2-109 5-116 0.99 0.47 0.64 0.32 0.32 0.63 11.2
3.40.1060 MC42052 A0A833RX13_42052 1-128 21-148 1.0 0.84 0.99 0.84 0.84 0.98 67.9
3.90.950 MC4186 A0A388LN08_4186 2-193 9-166 1.0 0.95 0.3 0.32 0.32 0.0 8.5
2.10.69 MC41789 P01061_41789 1-57 16-72 1.0 0.76 0.96 0.74 0.74 0.96 73.6
2.10.109 MC4178 A0A812S6D4_4178 1-118 6-85 1.0 0.92 0.38 0.5 0.5 0.5 11.6
3.40.1210 MC41773 A0A318NY94_41773 20-247 2-229 0.9 0.99 0.9 0.99 0.99 0.91 81.5
6.10.50 MC4174 A0A1V5C144_4174 2-44 86-133 0.9 0.35 0.63 0.26 0.26 0.64 12.5
3.30.2250 MC41696 A0A820GKG0_41696 4-148 131-259 0.98 0.49 0.17 0.12 0.12 0.0 14.3
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.