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
3.30.1230 MC7065 A0A100HWI3_7065 1-65 1-68 0.81 0.87 0.44 0.45 0.45 0.56 8.8
1.10.3730 MC7059 A0A660MSS7_7059 3-103 141-215 0.94 0.35 0.24 0.14 0.14 0.54 25.4
6.10.20 MC7050 H3DY56_7050 2-63 31-160 0.98 0.79 0.82 0.33 0.33 0.73 30.0
1.10.1760 MC7050 A0A7J7FMM4_7050 1-149 1-149 0.86 1.0 0.85 1.0 1.0 0.9 99.3
3.40.1180 MC7036 A0A2G2KTL4_7036 4-223 24-301 0.99 0.89 0.21 0.17 0.17 0.0 10.6
4.10.520 MC7012 A0A7G9GWC5_7012 1-69 17-85 0.99 0.35 0.47 0.2 0.2 0.64 22.5
3.30.56 MC7012 A0A4Q2WGU5_7012 2-67 20-88 0.97 0.27 0.68 0.22 0.22 0.64 13.8
1.10.4000 MC7010 A0A3S4IKP5_7010 12-76 6-69 0.81 0.46 0.64 0.4 0.4 0.67 13.8
3.30.60 MC7005 A0A6J0SDZ2_7005 1-55 12-66 1.0 0.6 0.99 0.59 0.59 0.97 94.5
1.20.900 MC6980 U1FU78_6980 5-159 163-346 0.8 0.53 0.62 0.37 0.37 0.56 20.3
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.