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
2.170.8 MC8538 A0A7S1DDD9_8538 2-99 18-117 0.93 0.78 0.18 0.16 0.16 0.0 13.6
3.30.980 MC8534 E5AAQ1_8534 12-90 66-183 0.87 0.64 0.56 0.32 0.32 0.52 8.4
3.90.1070 MC8534 A0A7C3YPN7_8534 3-71 62-146 0.97 0.56 0.56 0.3 0.3 0.52 7.8
3.30.1660 MC8534 A0A430QNY7_8534 1-68 138-206 1.0 0.34 0.54 0.21 0.21 0.58 13.3
3.30.1380 MC8534 A0A0F8BAU1_8534 1-157 13-169 1.0 0.88 0.95 0.84 0.84 0.9 92.9
3.90.1520 MC8534 A0A2E3RP40_8534 1-182 5-184 1.0 0.95 0.95 0.91 0.91 0.9 42.8
1.10.1420 MC8534 A5VIY4_8534 2-81 11-118 0.96 0.81 0.35 0.25 0.25 0.51 12.6
2.70.70 MC8530 A0A497J578_8530 2-120 4-152 0.98 0.48 0.77 0.32 0.32 0.68 12.4
2.20.210 MC8518 A0A086Q8K4_8518 1-53 148-220 1.0 0.21 0.96 0.15 0.15 0.99 39.7
6.20.220 MC8518 A0A6G0XXR8_8518 2-41 6-52 0.93 0.13 0.68 0.1 0.1 0.73 21.2
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.