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
P00646_2000359 MC47205 A0A2J9L2U1_47205 9-92 2-85 0.88 0.99 0.86 0.97 0.97 0.92 76.1
P02916_2001253 MC47205 A0A5E6NY88_47205 1-48 10-58 0.96 0.67 0.6 0.45 0.45 0.65 8.0
G0SHQ2_2001048 MC47022 A0A395NF43_47022 1-154 25-178 1.0 0.86 1.0 0.86 0.86 1.0 94.1
Q1GYY4_2001625 MC4701 A0A1G5QH27_4701 8-94 2-88 0.81 0.99 0.76 0.92 0.92 0.82 34.4
O26347_2000642 MC4694 A0A820YT54_4694 2-111 1-105 0.89 1.0 0.78 0.91 0.91 0.78 32.7
Q9QZ23_2000652 MC46883 A0A3P9Q000_46883 1-79 7-85 1.0 0.93 0.99 0.92 0.92 0.99 81.0
A1L259_2001099 MC46771 A0A4X1TMK5_46771 1-164 3-166 0.99 0.96 0.99 0.95 0.95 0.97 52.4
P52477_2001496 MC46551 A0A7H4PGU9_46551 1-65 143-207 1.0 0.3 0.97 0.3 0.3 0.96 55.3
W5F0E6_2000993 MC46526 A0A0E0MLJ3_46526 1-122 8-129 1.0 0.92 1.0 0.92 0.92 1.0 82.7
Q8XVB9_2001291 MC46456 A0A2E0WBB4_46456 2-59 94-150 0.95 0.38 0.89 0.37 0.37 0.89 41.3
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.