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
1.10.4160 MC15600 K6WBL4_15600 11-440 1-402 0.93 0.98 0.77 0.86 0.86 0.65 20.6
1.20.1740 MC15600 A0A2J6WLT6_15600 11-417 2-411 0.94 1.0 0.82 0.87 0.87 0.68 21.7
3.40.570 MC15540 A0A2J8PNF6_15540 38-276 1-239 0.8 1.0 0.8 1.0 1.0 0.9 99.1
3.40.1770 MC1545 A0A7V5RPN5_1545 1-336 2-545 1.0 0.99 0.99 0.61 0.61 0.98 45.9
1.10.3230 MC1540 A0A5E7NB54_1540 7-92 2-96 0.94 0.99 0.86 0.83 0.83 0.78 28.4
3.40.309 MC1531 A0A1I8IYE2_1531 1-190 256-445 1.0 0.41 1.0 0.41 0.41 0.98 65.7
4.10.10 MC15228 A0A2R9BI48_15228 13-61 3-51 0.8 0.96 0.72 0.84 0.84 0.75 63.2
2.60.260 MC1510 A0A3D2R2X0_1510 7-53 2-51 0.89 0.94 0.61 0.61 0.61 0.6 26.9
1.10.168 MC15087 A0A7M4FHU7_15087 2-63 107-168 0.98 0.3 0.95 0.3 0.3 0.93 96.7
3.40.1450 MC14882 A0A2R5GAJ5_14882 12-236 6-144 0.95 0.96 0.34 0.5 0.5 0.32 9.8
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.