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
3.90.1670 MC50045 A0A3D8P653_50045 16-280 2-209 0.93 0.99 0.44 0.58 0.58 0.46 16.9
3.30.499 MC50032 A0A7S3S5U1_50032 1-128 2-129 1.0 0.32 1.0 0.32 0.32 1.0 92.1
1.10.3930 MC50 A0A7Z7D3T4_50 1-78 64-141 1.0 0.52 1.0 0.52 0.52 1.0 97.4
4.10.1150 MC49996 A0A1S4DP69_49996 1-69 37-118 1.0 0.64 0.2 0.12 0.12 0.54 19.2
3.10.610 MC49964 A0A1E4VTA9_49964 2-96 53-154 0.98 0.47 0.87 0.4 0.4 0.82 33.0
4.10.81 MC49964 A0A1G0I4S2_49964 1-41 1-40 0.95 0.16 0.46 0.13 0.13 0.79 29.2
2.110.10 MC49953 A0A834GVN7_49953 2-204 1-205 0.91 1.0 0.89 0.97 0.97 0.89 55.3
2.115.10 MC49953 W9QUN2_49953 1-317 3-311 0.95 0.99 0.91 0.98 0.98 0.89 62.7
2.60.490 MC49775 A0A4D5RXA1_49775 1-284 22-305 1.0 0.79 0.98 0.78 0.78 0.95 75.7
3.10.380 MC4970 A0A810ZPA9_4970 1-75 4-79 1.0 0.96 0.84 0.8 0.8 0.83 75.0
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.