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
3.55.10 MC2995 A0A660QIQ8_2995 1-116 6-125 1.0 0.96 0.95 0.88 0.88 0.87 35.8
4.10.1100 MC29792 A0A2U1N651_29792 1-58 41-98 1.0 0.42 0.93 0.4 0.4 0.89 68.9
1.10.1540 MC29780 A0A3M7S4E8_29780 1-289 37-325 1.0 0.87 1.0 0.86 0.86 0.99 70.9
2.10.240 MC29758 A0A644UE95_29758 1-42 55-94 1.0 0.43 0.88 0.41 0.41 0.89 42.8
1.20.144 MC29613 A0A6P0BTM3_29613 20-172 2-152 0.87 0.31 0.77 0.29 0.29 0.75 37.1
1.10.606 MC29613 A0A354GV21_29613 3-386 167-461 0.96 0.64 0.65 0.57 0.57 0.7 29.3
1.10.1030 MC29473 A0A164KIN6_29473 19-120 7-87 0.85 0.32 0.31 0.16 0.16 0.5 12.5
6.20.410 MC29473 A0A818QTC6_29473 1-56 39-100 1.0 0.21 0.26 0.08 0.08 0.55 16.1
3.90.350 MC29473 A0A518H1G1_29473 7-264 69-350 0.94 0.81 0.6 0.49 0.49 0.48 11.6
2.30.36 MC29473 A0A1V6PFS7_29473 2-26 199-222 0.81 0.07 0.63 0.07 0.07 0.71 24.0
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.