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
1.10.890 MC8946 A0A4U5R5E9_8946 2-51 53-133 0.94 0.6 0.52 0.21 0.21 0.51 20.9
3.50.70 MC8946 A0A445F9Q9_8946 1-132 4-165 0.84 0.98 0.82 0.78 0.78 0.81 51.2
2.30.300 MC8929 A0A1A9WVW9_8929 20-173 2-317 0.88 0.95 0.82 0.44 0.44 0.81 19.3
2.30.110 MC8929 U2G3I2_8929 10-179 2-374 0.93 0.97 0.87 0.42 0.42 0.78 11.4
3.55.50 MC8929 A0A771YVS1_8929 1-72 13-81 0.99 0.37 0.7 0.31 0.31 0.61 10.9
3.10.440 MC8929 A0A7Y1LLR3_8929 2-83 1-84 0.99 0.48 0.31 0.18 0.18 0.0 10.2
6.20.110 MC8929 A0A7C9LIP1_8929 4-73 2-83 0.95 0.17 0.75 0.13 0.13 0.66 15.8
3.60.120 MC8929 F0H2B1_8929 24-407 14-335 0.92 0.92 0.11 0.12 0.12 0.0 8.9
3.30.1920 MC8929 A0A105TQQ4_8929 1-80 116-195 1.0 0.33 1.0 0.33 0.33 1.0 92.5
4.10.220 MC8929 A0A250KUZ9_8929 1-63 207-269 1.0 0.18 0.98 0.18 0.18 0.95 52.3
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.