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
3.90.100 MC32133 A0A655XLQ6_32133 22-117 1-96 0.82 1.0 0.82 1.0 1.0 0.89 76.0
1.10.1650 MC32112 A0A2G5VK65_32112 1-55 1-55 1.0 0.3 0.99 0.29 0.29 0.99 61.8
3.10.470 MC3199 A0A3N5YJH9_3199 1-92 1-92 0.99 1.0 0.86 0.87 0.87 0.84 72.8
3.40.1590 MC31625 A0A6N9HP15_31625 25-160 2-135 0.82 0.98 0.79 0.95 0.95 0.73 33.8
1.20.225 MC3142 A0A6V8KN44_3142 1-71 5-76 0.97 0.58 0.61 0.41 0.41 0.59 11.1
1.20.142 MC31418 F7BFK9_31418 2-134 1-101 0.98 0.96 0.26 0.3 0.3 0.5 11.7
3.90.78 MC31335 A0A7R8ZT11_31335 1-111 124-233 1.0 0.47 0.97 0.46 0.46 0.95 49.5
3.30.1610 MC31205 A0A7J5XTR3_31205 2-152 11-173 0.99 0.88 0.98 0.81 0.81 0.94 60.7
3.90.800 MC3120 A0A2R6AB14_3120 16-101 4-99 0.83 0.72 0.33 0.28 0.28 0.53 13.3
1.10.3270 MC31063 A0A384ASW7_31063 1-49 12-60 1.0 0.45 0.98 0.45 0.45 0.98 97.9
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.