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
1.10.238 MC6403 A0A7F8Q2Y7_6403 1-100 27-126 1.0 0.76 0.98 0.75 0.75 0.97 97.0
3.80.30 MC6401 A0A7S0GP05_6401 19-149 2-116 0.83 0.98 0.41 0.51 0.51 0.4 8.6
1.10.437 MC6396 A0A2D7C8A8_6396 16-138 29-179 0.85 0.77 0.35 0.28 0.28 0.51 9.0
3.90.1150 MC6385 K1A9L7_6385 1-143 45-188 0.93 0.76 0.92 0.75 0.75 0.94 93.0
1.10.1660 MC6383 A0A1S2T5E6_6383 5-68 1-57 0.82 0.98 0.59 0.75 0.75 0.71 15.3
6.10.200 MC6383 A0A845BXM7_6383 3-66 1-62 0.81 1.0 0.55 0.67 0.67 0.69 13.2
3.90.25 MC6371 A0A257MKX7_6371 3-76 18-87 0.95 0.69 0.42 0.34 0.34 0.54 15.1
2.40.340 MC63613 A0A287JFB2_63613 2-85 133-216 0.98 0.39 0.96 0.39 0.39 0.96 61.9
3.10.490 MC6355 A0A4U0WKF2_6355 1-110 1-129 0.93 0.41 0.65 0.27 0.27 0.56 12.4
1.10.101 MC6355 A0A1J4KA37_6355 13-70 255-307 0.81 0.16 0.64 0.15 0.15 0.67 17.2
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.