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.

SCOP Fold MCID DPC Target Q.Range T.Range Q.Cov T.Cov Q.TM-Score T.TM-Score A.TM-Score lDDT pIdent
U9Y9P1_2000606 MC60487 A7K148_60487 5-137 1-133 0.89 0.99 0.88 0.99 0.99 0.96 71.4
Q9HTW3_2000790 MC60362 A0A3T0K9Q5_60362 2-92 11-101 0.99 0.88 0.95 0.85 0.85 0.94 34.0
P04254_2000488 MC60350 A0A3R7LSN5_60350 1-131 28-158 1.0 0.28 0.99 0.28 0.28 0.97 61.0
P04254_2000498 MC60350 A0A5B7CRV4_60350 1-263 131-393 1.0 0.59 1.0 0.59 0.59 1.0 73.0
Q9CR50_2001160 MC60316 A0A1Z9VIS1_60316 3-51 47-91 0.88 0.32 0.63 0.28 0.28 0.65 22.4
P47963_2001315 MC60314 T0MF23_60314 1-115 49-163 1.0 0.56 1.0 0.56 0.56 1.0 95.6
Q13576_2000212 MC60303 A0A834BBY0_60303 1-94 68-161 1.0 0.58 0.99 0.58 0.58 0.99 93.6
P04004_2001039 MC6025 A0A2D1CPQ3_6025 1-37 5-41 1.0 0.41 0.97 0.41 0.41 0.95 40.5
Q9YAS7_2001387 MC6018 N2A4F3_6018 14-96 3-81 0.82 0.96 0.43 0.51 0.51 0.47 6.9
Q9X5F2_2000151 MC60098 A0A811P1F4_60098 4-276 6-257 0.99 0.7 0.86 0.66 0.66 0.76 40.2
Legend
  • Agreement between SCOP Folds and DPCstruct Metacluster Domains:
  • SCOP Fold: SCOP 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.