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
6.20.290 MC3287 A0A261Y3K3_3287 1-53 2-70 0.82 0.31 0.24 0.09 0.09 0.55 14.0
2.40.230 MC32759 A0A081N5Z0_32759 4-248 16-237 0.99 0.94 0.71 0.74 0.74 0.65 12.3
3.90.1240 MC32613 A0A2E3XWJ1_32613 28-225 2-138 0.84 0.84 0.44 0.61 0.61 0.57 14.2
3.90.840 MC32536 G5K2I0_32536 2-157 58-299 0.86 0.7 0.86 0.45 0.45 0.85 54.1
1.10.400 MC324 A0A7H4M842_324 9-118 2-115 0.92 0.86 0.91 0.82 0.82 0.92 61.4
1.20.150 MC3237 A0A4U6XKI3_3237 1-127 1-155 1.0 0.76 0.27 0.2 0.2 0.0 13.8
1.10.3520 MC32286 M2X964_32286 1-182 5-186 0.88 0.98 0.88 0.97 0.97 0.9 100.0
1.10.3140 MC32251 A0A1J1EFF9_32251 2-137 1-136 0.99 0.79 0.99 0.79 0.79 0.99 96.3
1.20.85 MC3221 U1R458_3221 3-99 8-104 0.97 0.48 0.39 0.24 0.24 0.52 17.1
4.10.790 MC322 A0A6A6SNE8_322 11-60 90-133 0.81 0.25 0.21 0.09 0.09 0.5 26.0
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.