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
3.30.710 MC6557 A0A1I7YZ67_6557 1-104 100-194 0.96 0.47 0.67 0.38 0.38 0.64 15.0
3.30.910 MC6557 A0A2P1P9E6_6557 20-141 105-223 0.86 0.53 0.4 0.25 0.25 0.59 9.3
1.10.750 MC6557 A0A6P6CMN5_6557 1-33 182-220 0.92 0.18 0.84 0.15 0.15 0.84 41.0
1.25.60 MC6557 A0A433JYE2_6557 14-106 83-185 0.84 0.55 0.51 0.33 0.33 0.47 18.1
3.20.120 MC6555 A0A167NZP9_6555 10-67 38-118 0.83 0.68 0.58 0.37 0.37 0.53 15.4
3.40.1140 MC6554 A0A0C9UB99_6554 32-204 46-197 0.85 0.67 0.12 0.11 0.11 0.0 11.7
2.60.420 MC6552 A0A1V6DMN1_6552 6-86 45-125 0.94 0.65 0.86 0.6 0.6 0.81 46.9
3.30.2080 MC6552 A0A661YRT0_6552 27-165 2-140 0.84 0.98 0.83 0.97 0.97 0.85 48.2
3.30.960 MC6550 A0A7C0YBD6_6550 11-119 2-117 0.85 0.99 0.83 0.9 0.9 0.82 33.6
2.30.120 MC6545 A0A6N1XDW8_6545 1-65 116-189 1.0 0.39 0.46 0.2 0.2 0.56 12.9
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.