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
3.30.1760 MC7819 A0A2R7Y7U3_7819 2-130 61-193 0.99 0.63 0.93 0.58 0.58 0.84 42.1
2.20.230 MC7811 A0A6S6U6R1_7811 5-75 146-204 0.93 0.28 0.49 0.2 0.2 0.62 11.8
2.30.18 MC7811 A0A6S6U6R1_7811 2-45 149-204 0.96 0.27 0.43 0.12 0.12 0.59 5.2
1.20.1280 MC7804 A0A433D3Q1_7804 2-78 9-85 0.99 0.83 0.95 0.8 0.8 0.93 38.9
2.160.20 MC7779 A0A2G2ZX54_7779 1-262 6-267 1.0 0.94 0.99 0.94 0.94 0.97 60.6
3.30.390 MC7768 A0A7C6BMX2_7768 20-113 5-89 0.83 0.96 0.51 0.61 0.61 0.48 8.2
3.90.1010 MC7768 A0A1I7FZ39_7768 17-101 13-83 0.84 0.86 0.51 0.61 0.61 0.49 12.5
1.10.135 MC776 A0A0S6UBU9_776 3-85 38-112 0.98 0.65 0.5 0.39 0.39 0.44 19.7
1.10.443 MC7753 A0A424TH44_7753 24-161 46-330 0.81 0.43 0.53 0.16 0.16 0.48 11.0
1.10.455 MC7730 E3KYU0_7730 25-153 124-274 0.84 0.53 0.18 0.13 0.13 0.0 10.9
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.