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
3.30.760 MC1744 A0A183PQA7_1744 8-160 74-240 0.96 0.67 0.19 0.14 0.14 0.0 8.1
2.170.300 MC17426 A0A7S3DHC3_17426 4-104 101-197 0.97 0.44 0.37 0.21 0.21 0.0 21.6
1.20.250 MC1739 A0A556V8I9_1739 48-344 16-297 0.86 0.78 0.29 0.27 0.27 0.52 17.7
1.10.3050 MC17345 A0A6A4KED9_17345 2-131 93-226 0.98 0.59 0.51 0.32 0.32 0.51 13.7
3.10.530 MC17325 A0A6S7KUL5_17325 8-70 66-123 0.89 0.32 0.58 0.26 0.26 0.54 12.5
2.40.390 MC17319 A0A6N8BAN1_17319 1-104 2-81 0.8 0.93 0.36 0.51 0.51 0.43 9.3
1.10.288 MC17158 A0A379X2R3_17158 1-88 6-162 1.0 0.58 1.0 0.32 0.32 1.0 54.7
3.10.196 MC17158 A0A7V9HGB3_17158 18-231 13-198 0.8 0.94 0.61 0.82 0.82 0.68 27.5
3.30.387 MC17125 A0A0D6LUH2_17125 2-80 133-254 0.98 0.28 0.65 0.14 0.14 0.58 9.6
3.20.100 MC16961 S0EBT2_16961 7-197 467-740 0.93 0.36 0.5 0.17 0.17 0.4 6.0
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.