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
3.30.44 MC1167 F3LDY5_1167 4-72 1-70 0.9 0.36 0.32 0.15 0.15 0.51 12.5
1.10.4040 MC11647 A0A2W4KD26_11647 1-52 70-121 0.96 0.4 0.9 0.39 0.39 0.92 34.6
3.60.150 MC11632 A0A6I1P2U0_11632 2-295 1-311 0.8 1.0 0.77 0.9 0.9 0.73 45.5
2.10.210 MC11556 W1NIE1_11556 6-44 6-45 0.89 0.29 0.27 0.1 0.1 0.0 20.0
3.40.1740 MC11516 A0A7J7BU55_11516 1-163 7-171 0.94 0.96 0.92 0.93 0.93 0.93 89.0
3.10.280 MC11476 A0A1V2M4Z8_11476 7-143 11-137 0.8 0.92 0.39 0.47 0.47 0.5 10.9
1.10.4140 MC11455 A0A7U9LQT8_11455 1-177 8-184 1.0 0.96 0.99 0.95 0.95 0.97 100.0
3.20.14 MC11327 A0A7X8EE10_11327 1-217 5-223 0.89 0.98 0.88 0.96 0.96 0.94 68.0
3.30.1170 MC11161 A0A3D0UUR7_11161 2-49 65-121 0.96 0.35 0.76 0.27 0.27 0.73 8.7
1.10.730 MC11161 A0A7K0SGM4_11161 19-135 3-129 0.85 0.48 0.74 0.4 0.4 0.7 28.1
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.