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
3.90.220 MC6109 A0A661HG02_6109 6-120 2-87 0.91 0.97 0.52 0.72 0.72 0.53 14.8
1.20.1090 MC61020 A0A7Z8D5I3_61020 1-202 15-216 0.99 0.93 0.98 0.93 0.93 0.96 65.3
3.90.1480 MC610 B6W9A0_610 1-236 1-135 0.92 0.99 0.3 0.51 0.51 0.32 13.0
1.20.1630 MC6098 A0A2H9RQX7_6098 18-251 2-209 0.93 0.87 0.38 0.39 0.39 0.0 8.8
2.60.15 MC6061 A0A832CF99_6061 1-79 1-63 0.89 1.0 0.38 0.51 0.51 0.4 8.2
3.40.1000 MC6043 A0A1E3QN13_6043 12-141 2-135 0.9 0.7 0.52 0.41 0.41 0.46 8.9
1.10.210 MC6043 A0A164TTH6_6043 2-66 103-167 0.97 0.36 0.4 0.19 0.19 0.56 23.5
1.20.850 MC60420 A0A0S4L3Q0_60420 2-234 35-266 1.0 0.87 0.99 0.86 0.86 0.97 59.2
1.10.1400 MC60382 A0A095AYX5_60382 7-158 106-244 0.94 0.48 0.71 0.42 0.42 0.64 20.7
2.60.390 MC60329 A0A124GTI6_60329 1-89 82-169 1.0 0.42 0.85 0.38 0.38 0.76 44.5
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.