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
3.30.2050 MC5506 A0A5N6P711_5506 1-39 80-118 1.0 0.22 0.98 0.22 0.22 0.98 92.3
3.90.1780 MC55033 A0A2X1YG87_55033 1-90 39-117 0.82 0.64 0.47 0.42 0.42 0.56 30.9
1.10.579 MC5493 A0A7C5FDY0_5493 16-127 61-190 0.81 0.67 0.55 0.41 0.41 0.49 15.7
4.10.1250 MC54572 A0A7J6YS18_54572 1-45 230-274 1.0 0.13 0.96 0.13 0.13 0.95 57.7
1.10.4090 MC54442 A0A1D1VCU4_54442 3-144 10-167 0.99 0.94 0.2 0.17 0.17 0.0 17.8
3.40.1700 MC54332 A0A7G9R0S2_54332 8-138 2-131 0.95 0.98 0.91 0.95 0.95 0.88 48.8
3.10.690 MC5423 Q5CBM7_5423 1-137 1-142 1.0 0.94 0.99 0.9 0.9 0.97 94.3
3.30.2210 MC5408 A0A091AID3_5408 1-105 1-108 1.0 0.96 0.97 0.91 0.91 0.93 44.4
1.50.40 MC54033 A0A498LHT6_54033 25-292 2-269 0.92 1.0 0.9 0.98 0.98 0.92 91.7
2.40.180 MC537 A0A1B0BU07_537 54-475 27-352 0.89 0.56 0.08 0.07 0.07 0.0 8.6
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.