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
3.30.413 MC2635 K1SCB9_2635 2-115 9-137 0.98 0.92 0.52 0.45 0.45 0.45 11.5
3.90.420 MC26164 A0A5A8C7B6_26164 1-236 12-286 1.0 0.94 0.98 0.79 0.79 0.93 45.8
3.30.1250 MC26031 T1A9X7_26031 1-80 7-86 1.0 0.85 0.96 0.82 0.82 0.92 52.5
1.10.3700 MC2578 A0A516H6P1_2578 30-217 2-199 0.87 0.92 0.66 0.67 0.67 0.66 23.7
3.30.1790 MC2567 A0A292III7_2567 3-89 67-153 0.95 0.4 0.85 0.38 0.38 0.77 14.9
3.90.182 MC25632 A0A1B1LH68_25632 2-228 12-269 1.0 0.47 0.9 0.38 0.38 0.79 35.7
3.40.1390 MC2559 A0A7V3AHE3_2559 5-115 3-100 0.95 0.39 0.53 0.28 0.28 0.46 9.9
3.30.1830 MC25456 A0A0R2DN65_25456 1-126 10-135 0.98 0.93 0.86 0.82 0.82 0.75 30.9
3.30.2430 MC2541 A0A840PI99_2541 8-165 2-142 0.82 0.55 0.52 0.4 0.4 0.48 14.4
3.90.1470 MC2529 A0A2P6VX95_2529 1-95 302-421 1.0 0.24 0.63 0.15 0.15 0.55 14.4
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.