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
3.60.90 MC6249 A0A538S4P9_6249 4-109 2-129 0.91 0.75 0.52 0.39 0.39 0.44 12.3
2.30.150 MC6247 A0A378AT12_6247 1-71 10-80 1.0 0.89 0.97 0.87 0.87 0.93 98.5
4.10.93 MC62400 A0A1I8MN19_62400 1-72 1-72 1.0 1.0 0.92 0.92 0.92 0.96 26.3
2.70.150 MC62384 A0A2H5XDN4_62384 16-84 48-146 0.81 0.66 0.52 0.32 0.32 0.5 11.5
4.10.470 MC6220 A0A402G8X5_6220 1-78 1-78 1.0 0.68 0.96 0.66 0.66 0.96 76.9
2.30.340 MC6215 A0A0F9P9V3_6215 3-91 167-248 0.96 0.31 0.69 0.27 0.27 0.62 10.9
1.10.600 MC6199 V6KA23_6199 41-291 5-216 0.83 0.82 0.45 0.51 0.51 0.42 15.0
3.30.379 MC61975 A0A3B9EM96_61975 4-105 21-141 0.83 0.65 0.5 0.36 0.36 0.42 8.6
3.60.130 MC6197 A0A2H3I9K8_6197 1-311 288-601 1.0 0.52 0.73 0.38 0.38 0.72 22.1
2.170.120 MC6191 C0NSH0_6191 1-125 40-165 0.99 0.47 0.97 0.46 0.46 0.94 57.9
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.