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
6.10.320 MC8615 A0A7S4CMI5_8615 1-143 3-142 0.96 0.96 0.42 0.43 0.43 0.63 13.5
3.40.1800 MC8612 A0A2W2EKB3_8612 4-70 107-160 0.84 0.29 0.5 0.23 0.23 0.54 26.4
2.30.33 MC8609 A0A6J1Y408_8609 2-98 1-97 0.92 1.0 0.9 0.97 0.97 0.92 100.0
6.20.10 MC8605 A0A0U3EY64_8605 7-58 103-151 0.9 0.3 0.28 0.14 0.14 0.57 17.3
2.10.10 MC8605 A0A812Q7Z7_8605 1-45 57-102 1.0 0.22 0.64 0.16 0.16 0.62 33.3
3.30.429 MC8592 A0A366GXD0_8592 1-58 2-59 0.98 0.95 0.94 0.91 0.91 0.96 67.2
3.40.1840 MC8570 A0A1Q9P343_8570 1-66 157-232 0.98 0.3 0.62 0.18 0.18 0.57 6.0
3.40.1280 MC8570 A0A349JC46_8570 4-162 2-127 0.98 0.99 0.35 0.41 0.41 0.0 7.1
3.90.20 MC8570 A0A1V1P6Y5_8570 5-125 76-193 0.91 0.61 0.39 0.29 0.29 0.55 15.3
3.30.450 MC8570 A0A7W6QX24_8570 3-116 137-251 0.96 0.43 0.84 0.39 0.39 0.78 22.8
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.