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
2.40.380 MC38144 A0A2V2AY90_38144 25-191 2-168 0.86 0.99 0.86 0.99 0.99 0.89 75.4
3.30.2300 MC3814 A0A523GAI7_3814 2-84 10-118 0.99 0.92 0.51 0.4 0.4 0.42 11.2
3.30.1180 MC3814 A0A158G8Q8_3814 1-122 4-129 1.0 0.98 0.54 0.51 0.51 0.49 8.4
3.90.360 MC38127 A0A3M0L0M5_38127 5-132 1-161 0.97 0.95 0.96 0.75 0.75 0.96 66.4
1.10.4070 MC38110 D1BT04_38110 6-76 79-159 0.92 0.41 0.74 0.31 0.31 0.68 21.9
1.10.3480 MC38110 A0A3S7DBF3_38110 17-196 2-181 0.88 0.99 0.87 0.98 0.98 0.87 76.1
3.30.2090 MC38085 A0A1W1H7P1_38085 2-87 44-139 0.97 0.54 0.43 0.25 0.25 0.5 12.8
1.10.3100 MC3790 B7LQ87_3790 2-115 21-137 0.99 0.85 0.97 0.81 0.81 0.95 58.9
1.10.590 MC37898 A0A6A6LID5_37898 14-239 2-236 0.92 0.99 0.9 0.93 0.93 0.9 73.7
3.90.480 MC37826 A0A517Z3B6_37826 2-129 15-310 0.84 0.96 0.78 0.39 0.39 0.73 12.1
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.