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
2.40.420 MC1434 A0A3C1HFC4_1434 12-72 92-152 0.8 0.17 0.72 0.16 0.16 0.72 26.2
3.30.1640 MC1417 C4WY73_1417 1-56 82-129 1.0 0.37 0.6 0.3 0.3 0.62 26.7
6.20.300 MC14128 A0A0V0XU99_14128 3-36 56-89 0.92 0.36 0.42 0.23 0.23 0.59 22.8
3.90.290 MC1411 A0A4W5K434_1411 1-58 3-71 0.89 0.97 0.87 0.8 0.8 0.92 71.0
3.40.1490 MC14056 A0A167FI50_14056 1-114 7-122 1.0 0.95 0.97 0.91 0.91 0.94 53.4
3.30.2400 MC1403 A0A547NJ24_1403 1-136 1-136 0.8 0.83 0.74 0.76 0.76 0.65 30.8
2.60.30 MC14025 A0A7W0P0T8_14025 13-109 66-173 0.89 0.54 0.36 0.23 0.23 0.0 17.3
2.70.210 MC13965 A0A7Y4ZGZ5_13965 3-154 4-156 0.99 0.5 0.97 0.49 0.49 0.93 51.6
6.20.240 MC13829 A0A0L6VYB8_13829 1-36 24-59 1.0 0.61 0.98 0.6 0.6 0.99 75.0
1.10.569 MC13818 A0A7J2KAL2_13818 32-186 4-154 0.83 0.92 0.72 0.82 0.82 0.73 42.4
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.