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
3.40.275 MC40208 A0A379ZV38_40208 2-165 30-193 0.99 0.74 0.99 0.74 0.74 0.99 99.3
3.30.2370 MC4020 A0A537MUL7_4020 2-63 5-69 0.98 0.83 0.86 0.71 0.71 0.86 56.9
1.10.3370 MC40158 A0A2M9PGX4_40158 59-424 2-365 0.86 1.0 0.77 0.88 0.88 0.72 39.8
3.90.530 MC4013 A0A2V0NJV2_4013 3-96 77-157 0.83 0.49 0.51 0.38 0.38 0.6 15.7
1.20.940 MC40045 A0A6P1B753_40045 2-101 8-107 0.98 0.47 0.57 0.32 0.32 0.53 11.5
3.90.1310 MC39911 A0A7S1KLX3_39911 2-119 63-118 0.89 0.36 0.26 0.22 0.22 0.5 5.9
3.30.2270 MC39722 A0A429YWG1_39722 4-89 1-87 0.94 1.0 0.92 0.96 0.96 0.89 43.6
1.20.141 MC39584 A0A1H7KE33_39584 27-142 13-128 0.81 0.91 0.81 0.9 0.9 0.87 73.2
3.10.120 MC3948 A0A7S2XZA4_3948 8-77 112-181 0.81 0.34 0.78 0.33 0.33 0.84 34.2
3.30.1940 MC3946 A0A2G9R718_3946 1-64 35-106 0.93 0.45 0.35 0.18 0.18 0.51 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.