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.

SCOP Fold MCID DPC Target Q.Range T.Range Q.Cov T.Cov Q.TM-Score T.TM-Score A.TM-Score lDDT pIdent
P76014_2000802 MC40590 A0A378A5B9_40590 8-203 2-197 0.94 0.99 0.94 0.99 0.99 0.95 82.6
Q9NR16_2000834 MC40581 Q9NR16_40581 1-101 1-101 1.0 0.84 1.0 0.83 0.83 1.0 100.0
Q5SLR1_2000745 MC40538 A0A6J4QHM7_40538 1-40 11-50 1.0 0.8 0.97 0.78 0.78 0.96 42.5
V5IMG5_2001305 MC40522 A0A316U5N5_40522 1-43 5-47 1.0 0.75 1.0 0.75 0.75 1.0 86.0
Q7Z8V1_2000230 MC40512 A0A1V4MSD0_40512 1-167 5-171 1.0 0.98 0.93 0.91 0.91 0.87 33.1
D0VWU7_2001261 MC40495 A0A0N0Z9L4_40495 2-165 82-245 0.99 0.42 0.95 0.41 0.41 0.96 97.5
D0VWU7_2000231 MC40495 A0A0N0Z9L4_40495 1-125 267-391 1.0 0.32 1.0 0.32 0.32 0.99 99.2
D9TQ02_2001471 MC40475 A0A1Y4CGP2_40475 1-231 15-245 0.98 0.94 0.97 0.93 0.93 0.95 53.2
P31939_2000886 MC40463 A0A7R9IVI0_40463 9-197 1-189 0.96 0.35 0.95 0.35 0.35 0.92 67.1
O00294_2000400 MC40443 M7BP62_40443 2-245 66-312 0.99 0.79 0.98 0.77 0.77 0.94 70.8
Legend
  • Agreement between SCOP Folds and DPCstruct Metacluster Domains:
  • SCOP Fold: SCOP 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.