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
3.30.2280 MC8183 A0A493TDP2_8183 1-108 14-120 1.0 0.89 0.95 0.86 0.86 0.91 86.1
3.65.10 MC8168 A0A443NXY6_8168 41-208 391-573 0.81 0.3 0.23 0.1 0.1 0.0 15.4
3.40.1260 MC8168 K0CBR5_8168 2-103 398-498 0.99 0.18 0.95 0.18 0.18 0.9 50.0
3.30.2320 MC8168 A0A832EYJ2_8168 8-88 229-303 0.92 0.25 0.58 0.19 0.19 0.59 7.1
3.30.730 MC8158 A0A0M9VJ08_8158 6-63 50-115 0.82 0.55 0.48 0.3 0.3 0.63 15.7
3.30.210 MC8154 A0A7W1EP50_8154 1-65 14-79 1.0 0.41 0.87 0.38 0.38 0.78 28.7
1.10.1050 MC8153 A0A7J4V3M7_8153 1-98 2-99 0.88 0.53 0.85 0.51 0.51 0.82 50.0
3.90.540 MC8151 A0A6W0P2G3_8151 1-130 178-307 1.0 0.42 0.97 0.42 0.42 0.94 66.1
2.170.16 MC8151 A0A1R3UQW6_8151 33-162 2-125 0.8 0.47 0.55 0.35 0.35 0.5 12.8
3.90.1230 MC814 A0A5E4BIT9_814 2-90 11-121 0.99 0.37 0.99 0.29 0.29 0.99 79.2
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.