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
3.90.55 MC23574 A0A0K0FZA1_23574 3-72 40-99 0.8 0.45 0.25 0.17 0.17 0.53 15.2
3.90.850 MC2355 Q3JPA4_2355 1-296 85-386 1.0 0.78 1.0 0.76 0.76 0.99 88.0
3.90.1590 MC2352 A0A6A6ZD52_2352 20-176 4-146 0.8 0.98 0.52 0.67 0.67 0.54 18.5
3.90.870 MC23498 A0A7C1B6R7_23498 4-205 1-202 0.98 1.0 0.97 0.98 0.98 0.9 40.5
2.40.170 MC23242 A0A3Q2H4J2_23242 44-328 67-281 0.86 0.49 0.42 0.33 0.33 0.64 6.5
3.10.550 MC23220 A0A1I5AXD2_23220 5-172 3-150 0.82 0.94 0.42 0.52 0.52 0.39 15.7
3.40.225 MC23040 A0A7C8E913_23040 8-189 2-155 0.95 0.99 0.64 0.78 0.78 0.58 11.5
1.10.3900 MC22745 A0A2Z6IMH2_22745 1-145 10-153 0.87 0.92 0.77 0.82 0.82 0.69 27.2
3.90.1820 MC22656 A0A2C9KC43_22656 3-476 4-303 1.0 0.97 0.12 0.15 0.15 0.0 9.1
3.10.420 MC22623 F2CDD3_22623 2-122 7-129 0.99 0.95 0.98 0.93 0.93 0.98 77.2
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.