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
3.30.2000 MC59165 A0A4R6U5E4_59165 7-136 2-133 0.96 0.94 0.88 0.85 0.85 0.78 23.3
2.170.230 MC59141 A0A2Z5TJ00_59141 2-65 94-178 0.93 0.38 0.7 0.24 0.24 0.66 14.7
3.50.20 MC5895 A0A1H7DVV2_5895 14-104 22-107 0.88 0.34 0.51 0.25 0.25 0.48 13.6
1.25.70 MC58802 A0A7J7VEE8_58802 40-259 1-220 0.82 1.0 0.81 1.0 1.0 0.93 90.9
3.90.249 MC58686 G0NY73_58686 4-229 25-243 0.86 0.62 0.61 0.47 0.47 0.5 13.0
3.30.950 MC5846 A0A5N5QLE4_5846 27-135 3-126 0.8 0.98 0.5 0.53 0.53 0.43 19.1
3.30.350 MC58412 A0A3M8G129_58412 1-108 26-168 0.97 0.75 0.5 0.32 0.32 0.47 9.4
3.30.2440 MC58323 A0A379XRA5_58323 1-115 21-135 1.0 0.85 0.94 0.8 0.8 0.88 78.2
2.70.160 MC5832 E6UAP3_5832 1-189 24-149 1.0 0.85 0.14 0.16 0.16 0.0 9.5
2.60.34 MC5832 A0A813L314_5832 1-94 18-131 0.84 0.84 0.53 0.46 0.46 0.49 10.8
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.