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
3.90.56 MC5955 A0A4R3YP77_5955 1-79 1-83 0.88 1.0 0.35 0.36 0.36 0.52 14.4
1.20.1550 MC5940 J2IC81_5940 3-147 7-159 0.98 0.93 0.88 0.8 0.8 0.77 39.2
3.40.1680 MC59399 D3FEQ7_59399 1-67 4-79 0.97 0.6 0.47 0.29 0.29 0.53 20.5
3.90.198 MC59395 A0A3A4KDG9_59395 10-193 6-178 0.88 0.97 0.45 0.52 0.52 0.39 9.8
1.20.89 MC5936 A0A3A9EHT9_5936 2-77 9-93 0.92 0.82 0.32 0.26 0.26 0.5 12.9
2.60.110 MC5935 S8AE86_5935 3-151 10-125 0.99 0.93 0.47 0.56 0.56 0.46 7.4
2.60.270 MC5935 A0A409VL31_5935 2-142 20-159 0.99 0.88 0.98 0.87 0.87 0.96 59.5
3.50.90 MC59269 A0A7V6ZTZ1_59269 28-286 1-271 0.9 1.0 0.83 0.88 0.88 0.73 30.1
3.60.140 MC59243 A0A1H2IA19_59243 40-218 1-166 0.81 0.99 0.65 0.85 0.85 0.65 24.4
2.20.180 MC5917 A0A0B7K633_5917 2-41 135-177 0.95 0.22 0.46 0.13 0.13 0.63 20.4
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.