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
1.10.532 MC30283 A0A0G2JX93_30283 1-123 4-126 1.0 0.19 0.97 0.19 0.19 0.95 96.7
1.10.1390 MC30269 A0A212C9Y4_30269 4-41 54-91 0.93 0.34 0.48 0.21 0.21 0.59 21.0
3.90.1690 MC30225 A0A5M8P628_30225 27-294 1-280 0.9 0.96 0.81 0.83 0.83 0.73 39.7
3.15.30 MC30225 A0A1D2XB42_30225 32-209 5-318 0.85 0.95 0.72 0.47 0.47 0.66 10.3
3.30.1930 MC30225 A0A077PNN8_30225 1-136 33-225 0.99 0.86 0.75 0.47 0.47 0.66 13.8
1.10.3180 MC30108 J3NKY5_30108 2-128 84-224 0.96 0.49 0.74 0.36 0.36 0.62 16.7
2.40.330 MC3008 A0A1G8IDK5_3008 2-95 5-93 0.85 0.91 0.5 0.54 0.54 0.45 16.4
3.90.330 MC3003 A0A852W5S5_3003 23-199 2-180 0.89 0.99 0.88 0.98 0.98 0.94 60.3
3.40.1090 MC30028 A0A2H5P9R2_30028 3-352 2-380 0.98 1.0 0.91 0.86 0.86 0.84 40.3
2.40.440 MC2996 A0A4Q3RSV1_2996 3-117 14-221 0.98 0.86 0.72 0.38 0.38 0.56 8.1
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.