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
3.30.2260 MC6353 A0A7I4B4G3_6353 19-98 1-80 0.8 0.99 0.78 0.96 0.96 0.84 43.7
3.90.1220 MC6351 A0A1Y1X422_6351 1-33 73-104 0.92 0.31 0.74 0.29 0.29 0.78 48.4
3.90.1680 MC63285 A0A0F8ASC4_63285 1-250 2-297 1.0 0.97 0.97 0.8 0.8 0.92 52.5
3.30.1280 MC6326 A0A0E0C5R6_6326 2-80 6-64 0.98 0.92 0.54 0.66 0.66 0.66 13.4
2.60.440 MC6317 A0A1I5C540_6317 13-75 3-70 0.84 0.94 0.57 0.59 0.59 0.54 9.5
2.60.90 MC6317 A0A1T2YKF6_6317 10-131 18-121 0.92 0.85 0.49 0.52 0.52 0.44 7.2
2.70.40 MC6317 A0A7D6Y955_6317 6-100 33-126 0.94 0.75 0.5 0.42 0.42 0.5 12.0
3.40.1460 MC6316 A0A6B3M2M0_6316 3-135 27-159 0.98 0.84 0.93 0.79 0.79 0.87 47.4
3.20.130 MC63127 A0A7Y2U6L9_63127 2-169 193-366 0.99 0.45 0.89 0.41 0.41 0.77 33.3
3.10.600 MC6310 A0A816FR35_6310 1-74 6-77 1.0 0.2 0.39 0.11 0.11 0.51 16.4
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.