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
4.10.270 MC39405 A0A7F8Q518_39405 1-55 127-181 0.81 0.3 0.58 0.25 0.25 0.89 61.8
2.20.120 MC3938 A0A3R6N0Q5_3938 1-57 73-126 0.98 0.4 0.46 0.24 0.24 0.58 12.2
6.20.150 MC3938 W3ATD9_3938 14-97 4-124 0.84 0.97 0.36 0.31 0.31 0.54 9.8
2.30.270 MC3938 U2UVW0_3938 3-60 25-79 0.94 0.42 0.46 0.25 0.25 0.51 18.0
2.10.270 MC3938 K1A3Y0_3938 1-62 66-127 1.0 0.43 0.97 0.42 0.42 0.96 51.6
1.10.1610 MC39301 A0A1M5TGT6_39301 1-55 2-56 0.87 0.38 0.79 0.36 0.36 0.78 36.3
4.10.460 MC39237 A0A452H738_39237 1-47 78-124 1.0 0.13 0.89 0.12 0.12 0.85 38.2
3.90.1430 MC39105 A0A2V2WQD0_39105 22-107 2-87 0.8 0.56 0.77 0.55 0.55 0.83 46.5
2.30.250 MC39019 A0A6B0QQM4_39019 5-139 1-145 0.97 0.96 0.97 0.89 0.89 0.96 87.5
3.30.1350 MC38928 K8A3I1_38928 5-44 55-90 0.87 0.34 0.51 0.23 0.23 0.6 22.5
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.