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
1.10.486 MC29380 A0A6Q2ZMA8_29380 3-138 169-318 0.9 0.29 0.72 0.23 0.23 0.66 17.1
6.10.330 MC29351 A0A6J1W2H7_29351 16-111 12-120 0.86 0.81 0.56 0.48 0.48 0.58 17.8
3.90.1330 MC29039 R5PCE3_29039 3-192 14-112 0.93 0.83 0.32 0.51 0.51 0.48 9.4
2.50.10 MC2894 A0A090MIC3_2894 12-355 12-350 0.96 0.73 0.17 0.13 0.13 0.0 9.2
6.10.360 MC2874 A0A5J4NFI6_2874 10-83 1-74 0.89 1.0 0.88 0.98 0.98 0.95 43.2
3.90.310 MC286 Q9J054_286 1-203 38-240 0.99 0.74 0.99 0.74 0.74 0.98 97.5
1.10.3920 MC28545 A0A1G6UA57_28545 1-155 51-190 1.0 0.73 0.17 0.15 0.15 0.0 12.5
2.40.15 MC285 S9YC40_285 1-100 8-107 0.99 0.88 0.91 0.82 0.82 0.83 59.0
2.30.24 MC28347 A0A164F652_28347 2-53 12-49 0.94 0.78 0.51 0.56 0.56 0.55 13.2
1.10.3340 MC2826 A0A7C2HZM5_2826 6-88 4-83 0.9 0.44 0.3 0.18 0.18 0.52 22.6
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.