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
3.20.190 MC3887 A0A166FVM3_3887 1-125 2-187 0.95 0.99 0.7 0.51 0.51 0.57 9.5
4.10.530 MC38757 A0A6A4RQF4_38757 1-73 60-132 1.0 0.52 1.0 0.52 0.52 1.0 89.0
1.20.1410 MC3873 Q8MQK1_3873 1-185 2-188 1.0 0.79 0.92 0.73 0.73 0.84 41.7
1.10.3660 MC3873 A0A132AL81_3873 4-112 7-107 0.96 0.78 0.25 0.22 0.22 0.53 13.6
1.40.10 MC3873 A0A2R8QGP7_3873 2-149 14-147 0.96 0.64 0.26 0.22 0.22 0.51 14.1
3.10.270 MC3870 A0A1M2V2V9_3870 40-291 27-259 0.86 0.81 0.1 0.11 0.11 0.0 5.1
2.70.230 MC3867 A0A1M2VEA5_3867 8-247 22-175 0.95 0.86 0.08 0.11 0.11 0.0 14.8
6.20.130 MC3846 A0A5C1DY60_3846 6-61 20-75 0.88 0.41 0.8 0.39 0.39 0.93 64.2
1.20.1180 MC384 K9SK89_384 2-65 30-91 0.91 0.61 0.52 0.38 0.38 0.55 18.1
6.20.450 MC3824 Q10WQ9_3824 1-45 19-70 0.9 0.65 0.71 0.46 0.46 0.74 21.1
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.