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
3.30.1160 MC7161 A0A5E4LK04_7161 11-62 91-138 0.82 0.15 0.42 0.12 0.12 0.65 18.8
3.50.30 MC7161 A0A3M2G1B6_7161 1-110 147-317 1.0 0.54 0.57 0.24 0.24 0.45 8.6
3.10.390 MC7157 A0A416FW75_7157 6-93 3-97 0.82 0.9 0.28 0.28 0.28 0.51 9.0
3.70.10 MC7153 A0A6A6Z0S4_7153 25-256 18-194 0.91 0.91 0.15 0.19 0.19 0.0 9.3
3.40.1440 MC7152 A0A6A6Q7R8_7152 2-83 103-189 0.89 0.32 0.71 0.26 0.26 0.65 19.7
2.40.250 MC715 A0A3B3ZCY2_715 1-125 2-135 1.0 0.99 0.98 0.91 0.91 0.96 83.5
3.30.2220 MC7144 A0A349YQ69_7144 5-109 1-86 0.96 1.0 0.51 0.64 0.64 0.58 13.1
3.40.605 MC7139 W5YL73_7139 21-257 5-238 0.92 0.64 0.24 0.18 0.18 0.0 11.3
2.40.20 MC7132 A0A1S3AP75_7132 1-79 5-83 1.0 0.84 0.99 0.84 0.84 0.99 72.1
1.10.630 MC7128 A0A849ZRV5_7128 43-369 60-393 0.8 0.8 0.12 0.12 0.12 0.0 9.4
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.