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
1.20.1560 MC3725 A0A2G6MEM2_3725 42-318 115-382 0.84 0.46 0.26 0.16 0.16 0.51 14.2
3.90.210 MC37158 A0A1Q4WA65_37158 12-198 18-173 0.84 0.9 0.49 0.62 0.62 0.48 18.0
1.10.740 MC3713 A0A6J4EJ09_3713 1-121 41-162 0.96 0.75 0.93 0.72 0.72 0.91 96.7
3.30.1010 MC37128 A0A672KNV5_37128 1-157 4-160 1.0 0.79 1.0 0.79 0.79 1.0 96.8
3.40.395 MC3705 A0A7V3HNR5_3705 30-209 41-214 0.86 0.78 0.15 0.14 0.14 0.0 9.6
1.10.1040 MC3705 A0A835U2P4_3705 1-130 170-299 1.0 0.43 1.0 0.43 0.43 1.0 92.3
6.10.240 MC3705 A0A7X6VLJ2_3705 1-131 132-262 0.9 0.5 0.89 0.5 0.5 0.93 57.2
3.40.1470 MC36711 A0A1V5HTV5_36711 6-121 1-115 0.9 1.0 0.88 0.98 0.98 0.84 48.2
4.10.990 MC36376 A0A2D6NCN6_36376 1-49 5-60 0.98 0.43 0.75 0.32 0.32 0.75 37.5
3.40.440 MC3621 A0A2M7V4Z7_3621 7-151 1-131 0.87 0.97 0.54 0.66 0.66 0.56 32.0
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.