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
3.90.1600 MC8719 A0A2I4D1N1_8719 27-165 1-224 0.83 0.68 0.72 0.38 0.38 0.71 17.3
3.40.1820 MC8719 A0A4S8YX28_8719 1-80 115-198 1.0 0.37 0.92 0.34 0.34 0.89 40.4
1.10.132 MC8719 A0A0A8P0S4_8719 2-132 24-154 0.99 0.79 0.98 0.79 0.79 0.97 66.4
3.30.1490 MC8708 A0A7Z7Z431_8708 3-53 2-52 0.93 0.98 0.91 0.96 0.96 0.94 43.1
3.10.290 MC8706 G3H7P3_8706 1-105 31-135 1.0 0.49 0.98 0.48 0.48 0.94 87.6
3.10.430 MC8706 A0A7J5YT75_8706 15-87 107-208 0.84 0.49 0.41 0.21 0.21 0.0 11.9
1.10.10 MC8706 A0A814I2B3_8706 1-77 3-79 1.0 0.34 0.98 0.33 0.33 0.96 58.4
3.10.20 MC8706 A0A6A4SKF0_8706 1-61 112-172 1.0 0.24 0.98 0.24 0.24 0.97 81.9
3.10.260 MC8699 A0A0L0FTI5_8699 11-94 12-92 0.89 0.71 0.63 0.54 0.54 0.6 9.4
1.10.220 MC8687 A0A6J0XCM7_8687 3-75 73-149 0.96 0.35 0.82 0.31 0.31 0.78 16.6
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.