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
3.30.740 MC5189 A0A0R3T5L9_5189 2-84 105-190 0.98 0.32 0.89 0.3 0.3 0.78 24.4
3.30.1620 MC51833 A0A4Y3G2Z2_51833 22-112 67-149 0.81 0.38 0.55 0.29 0.29 0.52 17.5
2.10.300 MC51704 A0A256ZUA7_51704 2-52 67-108 0.98 0.35 0.37 0.19 0.19 0.59 21.5
1.10.3510 MC51628 A0A1A0KA01_51628 12-114 4-111 0.82 0.95 0.57 0.62 0.62 0.52 15.3
1.10.3980 MC51515 A0A2V7VIS1_51515 2-99 20-119 0.99 0.37 0.89 0.34 0.34 0.81 29.4
3.10.520 MC51515 E5VNA2_51515 29-321 2-283 0.89 0.99 0.81 0.94 0.94 0.76 28.2
3.30.1840 MC5142 A0A2V5M1B7_5142 11-137 2-127 0.84 0.99 0.66 0.77 0.77 0.63 26.1
3.40.367 MC51411 A0A0A2W100_51411 2-197 15-213 1.0 0.86 0.99 0.85 0.85 0.99 82.9
4.10.970 MC51270 A0A6L7PX52_51270 2-58 4-70 0.9 0.94 0.28 0.25 0.25 0.7 17.6
1.10.3680 MC5107 A0A7Z9JXS8_5107 1-119 6-128 1.0 0.96 0.76 0.72 0.72 0.69 16.6
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.