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
4.10.780 MC56844 A0A7J6P4P3_56844 1-34 179-213 0.83 0.16 0.69 0.15 0.15 0.82 22.8
3.40.920 MC56844 A0A2M6YGI6_56844 3-209 1-206 0.98 1.0 0.95 0.98 0.98 0.89 62.3
1.10.15 MC5671 X0YFP1_5671 2-57 1-56 0.98 0.97 0.96 0.94 0.94 0.95 73.2
3.10.500 MC56658 A0A151AT22_56658 3-161 27-182 0.94 0.83 0.65 0.59 0.59 0.57 16.9
4.10.49 MC5657 J3NTA3_5657 1-47 30-74 1.0 0.6 0.8 0.53 0.53 0.85 31.2
6.10.150 MC5654 A0A814CFA7_5654 1-57 87-143 1.0 0.18 0.92 0.18 0.18 0.91 52.6
3.40.420 MC56510 A0A6J1DYP1_56510 1-161 5-174 0.99 0.78 0.96 0.71 0.71 0.88 43.2
1.10.3630 MC5648 A0A0D2G7W6_5648 4-237 1-254 0.91 1.0 0.89 0.9 0.9 0.81 50.7
2.30.310 MC56467 D8J396_56467 4-153 5-159 0.98 0.65 0.86 0.56 0.56 0.79 22.2
2.30.160 MC56451 A0A6P4EJ51_56451 1-63 11-73 1.0 0.49 0.97 0.48 0.48 0.97 65.0
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.