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
1.20.90 MC8454 X1X316_8454 12-103 10-101 0.86 0.9 0.63 0.66 0.66 0.58 14.8
1.10.260 MC8430 A0A1N7D288_8430 1-57 1-56 0.98 0.88 0.85 0.78 0.78 0.83 27.5
3.30.240 MC8430 A0A8A9ZXZ2_8430 1-57 2-58 0.98 0.69 0.94 0.66 0.66 0.93 42.1
2.170.260 MC8428 U7FNI1_8428 12-89 1-75 0.88 0.99 0.46 0.53 0.53 0.56 10.7
2.30.30 MC8428 C3ZEF1_8428 2-57 31-94 0.98 0.41 0.87 0.33 0.33 0.84 28.1
1.10.1470 MC8426 A0A5C8IZ41_8426 9-65 4-60 0.83 0.95 0.76 0.86 0.86 0.8 50.8
2.40.128 MC8424 A0A7X7VZX1_8424 1-95 69-163 1.0 0.58 0.98 0.57 0.57 0.94 44.2
1.20.59 MC8415 A0A3L8SW17_8415 2-86 40-126 0.98 0.66 0.56 0.4 0.4 0.73 13.6
1.10.490 MC8415 A0A1K0FU75_8415 1-140 24-163 0.99 0.86 0.98 0.85 0.85 0.96 92.1
1.10.60 MC8403 A0A2P5YBD9_8403 6-60 4-66 0.9 0.5 0.52 0.27 0.27 0.53 15.8
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.