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.

SCOP Fold MCID DPC Target Q.Range T.Range Q.Cov T.Cov Q.TM-Score T.TM-Score A.TM-Score lDDT pIdent
P47596_2001225 MC11210 A0A8B6M254_11210 1-111 18-128 0.81 0.87 0.49 0.52 0.52 0.41 12.5
Q9KSX6_2000316 MC11200 L8JIQ3_11200 1-44 1-44 0.98 0.34 0.96 0.34 0.34 0.98 65.9
Q8X778_2001568 MC11199 A0A5U3NQL6_11199 10-177 2-172 0.92 0.98 0.86 0.89 0.89 0.76 26.9
Q9SV72_2000181 MC11133 Q9SV72_11133 1-45 10-54 1.0 0.83 1.0 0.83 0.83 1.0 100.0
Q82ZC8_2000338 MC11104 A0A843PC36_11104 3-118 2-117 0.83 0.98 0.82 0.97 0.97 0.91 65.5
O28028_2000218 MC11101 A0A523AU62_11101 1-226 3-231 0.91 0.99 0.86 0.92 0.92 0.83 41.1
O34960_2000253 MC10973 A0A4R2NJT4_10973 1-60 61-127 1.0 0.52 0.97 0.46 0.46 0.96 56.7
O94752_2000308 MC10958 O94752_10958 1-60 1-60 1.0 0.3 1.0 0.3 0.3 1.0 100.0
P11717_2000936 MC10957 P11717_10957 1-133 237-369 1.0 0.19 1.0 0.19 0.19 1.0 100.0
O64818_2001197 MC10954 A0A835WBP3_10954 3-73 1-71 0.92 0.99 0.66 0.7 0.7 0.88 61.9
Legend
  • Agreement between SCOP Folds and DPCstruct Metacluster Domains:
  • SCOP Fold: SCOP 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.