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
2.60.510 MC53648 A0A7J3MCT1_53648 2-107 32-275 0.99 0.65 0.86 0.26 0.26 0.77 12.7
1.10.290 MC53648 A0A836D1N5_53648 1-125 121-245 1.0 0.27 1.0 0.27 0.27 1.0 92.0
3.30.190 MC5360 D0VX13_5360 1-118 1-118 1.0 1.0 0.98 0.98 0.98 0.97 100.0
2.60.98 MC5350 A0A484F2T2_5350 1-124 59-199 0.97 0.26 0.81 0.2 0.2 0.74 29.1
4.10.400 MC5335 A0A4Y2G885_5335 2-36 23-57 0.97 0.29 0.89 0.28 0.28 0.91 42.8
2.30.34 MC53140 A0A7S3PZA8_53140 5-52 2-50 0.92 0.4 0.67 0.32 0.32 0.64 19.6
3.30.1480 MC53111 A0A842NFS0_53111 7-86 5-98 0.86 0.52 0.5 0.28 0.28 0.49 12.7
3.90.110 MC53111 A0A151MCJ6_53111 2-163 1-162 0.96 1.0 0.96 1.0 1.0 0.97 83.3
6.20.230 MC52956 A0A7X7R2Z2_52956 2-22 8-28 0.84 0.15 0.8 0.15 0.15 0.86 61.9
3.90.320 MC52870 A0A8B6EGR7_52870 1-190 170-383 0.97 0.31 0.67 0.21 0.21 0.6 19.1
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.