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
2.10.220 MC1265 W5QD61_1265 7-87 1-82 0.82 1.0 0.8 0.96 0.96 0.84 52.4
4.10.760 MC1257 L5LT97_1257 1-40 32-71 1.0 0.56 0.7 0.45 0.45 0.75 75.0
3.30.1710 MC124 A0A812J1M6_124 19-91 114-198 0.8 0.43 0.5 0.27 0.27 0.46 14.6
3.40.228 MC124 A0A7S2TMA4_124 3-128 13-140 0.98 0.57 0.57 0.36 0.36 0.5 11.2
1.10.155 MC124 A0A2V7VCL0_124 7-75 2-71 0.92 0.26 0.78 0.24 0.24 0.73 24.2
2.40.270 MC12238 A0A212DSN5_12238 41-223 5-187 0.82 0.68 0.75 0.62 0.62 0.69 57.5
1.10.3880 MC12231 A0A6N8VAN7_12231 5-75 4-74 0.95 0.84 0.88 0.79 0.79 0.86 29.5
2.102.10 MC1219 A0A166BF46_1219 2-88 1-85 0.84 1.0 0.43 0.5 0.5 0.46 9.0
3.60.160 MC11981 A0A432TEZ2_11981 3-197 1-239 0.98 0.97 0.94 0.76 0.76 0.86 43.9
1.10.3020 MC11762 A0A6U0K852_11762 15-92 101-174 0.82 0.1 0.38 0.07 0.07 0.5 17.9
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.