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
2.10.260 MC8392 A0A7D7X646_8392 7-44 15-52 0.86 0.58 0.67 0.48 0.48 0.75 7.8
3.30.46 MC8385 A0A838DMV9_8385 2-67 65-132 0.98 0.4 0.47 0.23 0.23 0.57 15.0
3.30.1040 MC8385 E9I2J7_8385 9-51 1-48 0.81 0.33 0.46 0.2 0.2 0.66 4.1
2.170.210 MC8385 A0A7J6I9T2_8385 25-168 35-172 0.84 0.77 0.22 0.21 0.21 0.5 12.1
3.30.1580 MC8385 A0A243E8G2_8385 2-52 45-122 0.88 0.63 0.52 0.28 0.28 0.49 15.3
3.30.1050 MC8385 A0A2N9IQV7_8385 3-129 16-120 0.98 0.84 0.23 0.23 0.23 0.0 8.9
3.30.1500 MC8385 A0A402CYK0_8385 18-175 67-177 0.9 0.62 0.15 0.14 0.14 0.0 7.4
3.30.2450 MC8385 A0A4C1YQZ6_8385 2-145 9-152 0.99 0.89 0.97 0.88 0.88 0.95 86.8
3.30.1780 MC8385 A0A7J6I9T2_8385 23-127 65-155 0.8 0.51 0.31 0.23 0.23 0.56 14.0
2.30.31 MC8385 Q386Y3_8385 1-145 25-169 0.99 0.78 0.99 0.77 0.77 0.99 99.3
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.