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
3.40.630 MC6310 L9L9I3_6310 1-127 14-163 0.99 0.59 0.99 0.5 0.5 0.98 82.0
3.20.140 MC6310 A0A1S8VW73_6310 3-153 98-234 0.91 0.58 0.69 0.5 0.5 0.68 30.7
3.30.2010 MC6306 A0A671UCF5_6306 1-97 34-130 1.0 0.34 1.0 0.34 0.34 0.99 87.6
1.20.1500 MC6306 A0A5S9IRJ1_6306 14-130 133-237 0.89 0.27 0.35 0.13 0.13 0.54 17.3
3.90.226 MC6306 A0A522EU29_6306 11-249 5-248 0.96 0.97 0.19 0.19 0.19 0.0 12.3
1.10.390 MC6306 A0A0B8QMF0_6306 1-163 21-183 0.99 0.89 0.99 0.89 0.89 0.99 86.5
3.10.170 MC6306 T2RDC7_6306 22-149 2-101 0.86 0.67 0.51 0.51 0.51 0.5 12.9
3.50.50 MC6303 A0A832CN88_6303 1-183 1-282 0.99 0.98 0.51 0.34 0.34 0.33 10.8
4.10.1040 MC63021 A0A183PKG9_63021 1-44 3-46 0.85 0.55 0.67 0.44 0.44 0.74 40.9
3.90.1290 MC6296 H3CB78_6296 1-241 81-323 1.0 0.74 0.98 0.72 0.72 0.93 60.9
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.