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
3.60.100 MC34257 A0A1S1WU36_34257 18-288 2-174 0.92 0.99 0.34 0.52 0.52 0.31 8.2
4.10.430 MC34233 A0A3N6R7F0_34233 1-49 26-78 1.0 0.68 0.85 0.56 0.56 0.8 28.3
1.20.1660 MC34223 A0A0R2NK64_34223 6-108 1-105 0.9 0.98 0.86 0.92 0.92 0.83 45.7
2.30.260 MC3404 A0A5C1PWV5_3404 8-95 2-103 0.91 0.94 0.52 0.47 0.47 0.5 18.0
3.30.2120 MC3394 A0A7C6K915_3394 13-105 4-111 0.85 0.94 0.51 0.49 0.49 0.54 12.6
6.20.170 MC33813 A0A5J4VZ79_33813 6-50 86-128 0.83 0.31 0.43 0.2 0.2 0.63 37.7
3.40.1660 MC33640 A0A2U3KR40_33640 32-196 3-249 0.8 0.99 0.62 0.52 0.52 0.59 14.2
2.60.350 MC33618 A0A6D0R2F5_33618 8-165 17-142 0.96 0.48 0.64 0.41 0.41 0.66 17.1
3.40.198 MC33521 M5C5V3_33521 1-189 1-187 0.98 1.0 0.91 0.93 0.93 0.8 32.4
1.10.1170 MC33496 A0A6P5WEN6_33496 18-136 6-111 0.88 0.96 0.27 0.32 0.32 0.5 13.4
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.