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
2.60.20 MC8256 A0A426UI22_8256 2-86 22-114 0.98 0.8 0.79 0.61 0.61 0.66 17.7
3.40.5 MC8243 A0A2I1GPP1_8243 2-48 80-140 0.98 0.44 0.51 0.23 0.23 0.56 9.8
1.20.20 MC8232 A0A3S1AAN6_8232 2-75 51-124 0.99 0.6 0.95 0.58 0.58 0.95 59.4
6.20.210 MC8231 A0A553HPK7_8231 12-79 292-359 0.86 0.17 0.55 0.12 0.12 0.73 37.6
3.90.940 MC8213 A0A1R3KSC5_8213 2-72 11-82 0.99 0.85 0.83 0.71 0.71 0.78 36.1
1.20.245 MC8211 A0A2K3LQA0_8211 67-347 1-189 0.81 0.99 0.52 0.95 0.95 0.68 45.0
3.30.700 MC8205 A0A3D4CH82_8205 2-104 36-188 0.97 0.76 0.57 0.33 0.33 0.46 12.2
3.30.2190 MC819 A0A7S3VNU7_819 6-99 46-164 0.88 0.56 0.54 0.32 0.32 0.52 9.1
3.30.1120 MC8183 A0A7S2IU10_8183 3-88 4-84 0.94 0.91 0.34 0.34 0.34 0.5 16.0
3.30.530 MC8183 B6AJ12_8183 18-143 2-97 0.88 0.99 0.39 0.55 0.55 0.48 12.5
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.