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
2.40.33 MC8663 A0A7C3N9M2_8663 3-92 6-88 0.89 0.94 0.46 0.51 0.51 0.45 12.0
3.10.129 MC8650 A0A7C1MZI7_8650 13-148 5-100 0.92 0.96 0.23 0.32 0.32 0.0 7.1
3.30.30 MC8650 A0A7J3CVJ4_8650 1-52 1-53 1.0 0.65 0.71 0.5 0.5 0.64 11.3
3.30.170 MC8650 A0A804LDU7_8650 1-70 6-73 0.99 0.72 0.49 0.39 0.39 0.51 6.5
2.10.90 MC8642 A0A401RJ19_8642 1-91 3-96 0.96 0.98 0.5 0.5 0.5 0.54 16.8
3.30.559 MC8625 V6TU29_8625 16-173 14-147 0.8 0.89 0.23 0.27 0.27 0.0 9.9
3.90.1570 MC8625 A0A453D415_8625 30-172 1-142 0.83 0.93 0.82 0.92 0.92 0.84 64.3
2.20.150 MC8625 A0A061H8H2_8625 1-52 3-64 1.0 0.52 0.48 0.23 0.23 0.52 13.4
1.20.1300 MC8618 A0A1X2GCZ5_8618 15-121 109-206 0.88 0.46 0.43 0.29 0.29 0.59 14.9
4.10.820 MC8615 F4Q546_8615 9-64 107-162 0.85 0.3 0.38 0.18 0.18 0.59 20.6
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.