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
1.20.1370 MC30886 A0A4S8L7X7_30886 1-86 38-124 0.88 0.7 0.87 0.69 0.69 0.94 49.4
1.10.468 MC3078 A0A840Y1F6_3078 3-118 7-126 0.86 0.89 0.82 0.82 0.82 0.78 52.4
3.15.20 MC30644 A0A803LXY5_30644 26-275 2-249 0.91 0.98 0.84 0.91 0.91 0.74 22.9
1.10.1600 MC3064 A0A0A8L1U9_3064 4-90 70-153 0.88 0.49 0.26 0.16 0.16 0.54 14.9
3.90.45 MC30438 B8ACB8_30438 3-156 1-154 0.85 0.99 0.84 0.98 0.98 0.91 68.8
2.70.130 MC30402 A0A812QML0_30402 3-94 298-389 0.98 0.24 0.91 0.23 0.23 0.89 31.5
3.90.1390 MC30383 A0A239PSX0_30383 4-91 80-158 0.94 0.49 0.35 0.24 0.24 0.52 6.4
2.40.360 MC30379 A0A504JPK8_30379 9-211 7-207 0.96 0.97 0.83 0.85 0.85 0.73 22.1
3.90.1450 MC30307 A0A673TQS0_30307 3-94 5-92 0.98 0.96 0.6 0.61 0.61 0.55 72.8
3.90.830 MC30288 A0A484BHD5_30288 4-109 14-97 0.94 0.28 0.4 0.18 0.18 0.52 16.8
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.