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
1.10.4020 MC2448 A0A397VCF4_2448 3-91 1-81 0.97 0.71 0.4 0.33 0.33 0.68 16.6
1.10.3970 MC24421 A0A1S3MU99_24421 7-95 12-100 0.89 0.42 0.82 0.4 0.4 0.83 83.1
3.30.1430 MC24380 A0A6I9KS13_24380 1-123 8-130 1.0 0.55 0.98 0.54 0.54 0.93 91.0
1.20.1220 MC2438 A0A4R4D3W0_2438 5-153 1-151 0.97 1.0 0.89 0.9 0.9 0.79 36.6
3.55.40 MC23876 A0A1M5Q7W2_23876 1-115 97-211 1.0 0.54 0.99 0.54 0.54 0.98 66.0
2.20.90 MC23865 W5MPP9_23865 5-160 5-160 0.9 0.98 0.82 0.89 0.89 0.78 27.8
1.20.1530 MC23827 A0A1G0ZGK6_23827 5-308 2-306 0.99 1.0 0.96 0.97 0.97 0.87 36.0
1.10.3720 MC23819 V8C769_23819 10-216 175-380 0.96 0.54 0.93 0.53 0.53 0.89 44.4
3.40.830 MC23804 A0A1D5P0V5_23804 9-289 1-281 0.96 1.0 0.96 1.0 1.0 0.97 98.2
1.10.1160 MC23686 A0A5E4N2S3_23686 2-77 14-94 0.97 0.36 0.94 0.34 0.34 0.91 39.5
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.