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
3.30.1860 MC16141 Q8TWR4_16141 4-107 1-104 0.97 0.96 0.97 0.96 0.96 0.96 98.0
3.40.1580 MC1609 A0A4Y8SDB5_1609 6-130 30-170 0.95 0.78 0.6 0.45 0.45 0.52 18.9
4.10.960 MC15964 A0A6B0RX28_15964 1-91 2-78 1.0 0.85 0.44 0.44 0.44 0.55 27.0
2.60.480 MC15850 A0A416NG83_15850 1-84 16-103 0.99 0.73 0.92 0.66 0.66 0.84 27.2
2.40.490 MC15791 A0A815TCZ4_15791 3-82 95-186 0.9 0.26 0.65 0.19 0.19 0.62 10.6
3.40.720 MC15757 A0A640LFZ0_15757 1-308 3-311 1.0 0.91 1.0 0.9 0.9 0.98 76.3
6.10.190 MC1566 A0A2U1PCZ6_1566 11-61 4-55 0.82 0.2 0.62 0.17 0.17 0.76 38.4
3.20.19 MC1566 A0A0H3EB85_1566 1-167 1-168 1.0 0.88 0.98 0.86 0.86 0.92 60.7
3.40.1760 MC15652 A0A2D5I1R5_15652 2-114 5-94 0.98 0.94 0.46 0.54 0.54 0.47 6.5
1.20.1730 MC15600 A0A2T0XRU7_15600 18-463 14-449 0.87 0.97 0.73 0.82 0.82 0.62 25.2
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.