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
3.10.400 MC64427 A0A3C2EJJ9_64427 32-156 2-127 0.8 0.99 0.77 0.94 0.94 0.86 47.6
2.10.280 MC6442 A0A0B1MC05_6442 3-40 37-75 0.93 0.47 0.57 0.3 0.3 0.57 23.8
4.10.60 MC6433 A0A498JDU5_6433 4-45 29-95 0.91 0.6 0.47 0.24 0.24 0.67 17.9
1.10.418 MC6430 C1C4W4_6430 1-162 3-164 0.99 0.74 0.9 0.68 0.68 0.91 48.7
1.10.3810 MC6427 O66874_6427 1-174 29-211 1.0 0.84 0.98 0.79 0.79 0.96 95.0
6.20.370 MC6427 A0A2Z5QN95_6427 2-41 27-66 0.98 0.25 0.5 0.15 0.15 0.89 30.0
3.30.780 MC6419 A0A2S6AMI4_6419 2-79 4-82 0.99 0.94 0.66 0.63 0.63 0.61 12.5
6.10.300 MC64164 L5LTS9_64164 4-47 218-261 0.94 0.07 0.91 0.07 0.07 0.94 95.4
2.70.98 MC6416 A0A2V9R394_6416 1-268 13-303 0.94 0.36 0.59 0.22 0.22 0.54 10.4
2.40.320 MC6415 A0A4Y8YAN3_6415 1-154 12-98 0.94 0.86 0.35 0.52 0.52 0.45 9.6
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.