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
3.90.820 MC3779 A0A6I1N2V4_3779 6-64 19-97 0.92 0.81 0.42 0.3 0.3 0.51 17.5
1.10.2020 MC3766 A0A518I144_3766 12-82 2-73 0.86 0.43 0.84 0.42 0.42 0.81 54.1
2.60.11 MC37615 A0A3P8WRF0_37615 4-95 16-107 0.94 0.86 0.91 0.83 0.83 0.91 61.9
3.90.430 MC37552 A0A1X2GYU3_37552 1-41 1-46 0.98 0.46 0.65 0.32 0.32 0.74 41.3
3.40.1130 MC37545 A0A7T1F5W9_37545 17-251 5-250 0.88 0.47 0.55 0.31 0.31 0.45 10.3
1.10.3190 MC375 A0A1M6JZX1_375 1-109 56-166 0.99 0.64 0.92 0.6 0.6 0.86 35.7
3.80.20 MC37487 A0A6I9MDF5_37487 2-168 1-167 0.99 1.0 0.99 1.0 1.0 0.99 74.2
1.10.3600 MC37323 A0A4Y7LA20_37323 2-121 1-113 0.99 0.6 0.28 0.2 0.2 0.5 9.8
3.40.10 MC3731 A0A537B8P9_3731 1-69 12-81 1.0 0.22 0.98 0.21 0.21 0.96 57.1
3.30.572 MC37290 A0A2A6B4T4_37290 2-280 14-292 1.0 0.94 0.98 0.92 0.92 0.92 59.8
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.