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
3.90.1770 MC41105 A0A4Z2BDM3_41105 1-42 124-171 1.0 0.16 0.98 0.14 0.14 0.99 58.3
1.20.1060 MC4101 A0A847MQS0_4101 3-100 67-143 0.91 0.52 0.47 0.36 0.36 0.54 17.3
6.20.350 MC4083 A0A6A7C5H7_4083 1-91 1-88 1.0 0.88 0.33 0.31 0.31 0.51 11.4
6.20.320 MC4061 A0A183KNK4_4061 2-46 167-211 0.98 0.2 0.85 0.19 0.19 0.92 71.1
3.90.175 MC4061 A0A2S1JU27_4061 8-164 6-144 0.83 0.96 0.53 0.68 0.68 0.51 22.4
3.20.170 MC4061 A0A7J7BG35_4061 2-84 63-169 0.95 0.58 0.64 0.33 0.33 0.57 15.5
3.40.1710 MC40472 W9ZBD5_40472 2-120 50-197 0.83 0.74 0.6 0.46 0.46 0.54 15.8
3.30.590 MC4046 A0A177B8A7_4046 5-163 26-184 0.84 0.86 0.81 0.83 0.83 0.82 54.7
1.20.1380 MC40247 A0A7H4P7S9_40247 14-116 2-104 0.87 0.98 0.87 0.97 0.97 0.89 90.2
1.10.1070 MC40231 A0A7S0V825_40231 1-151 3-177 0.89 0.93 0.52 0.48 0.48 0.49 10.1
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.