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
P74902_2000255 MC41525 A0A816NJT0_41525 5-305 1-321 0.94 0.99 0.77 0.76 0.76 0.61 15.9
A0A6M9BP13_2000062 MC41314 A0A401L037_41314 1-336 1-336 1.0 1.0 1.0 0.99 0.99 0.98 69.0
Q9SJ89_2000680 MC41313 O78461_41313 5-96 2-92 0.81 0.99 0.79 0.98 0.98 0.87 67.3
P28306_2001446 MC41267 A0A316SDT8_41267 2-154 108-263 0.99 0.59 0.95 0.56 0.56 0.91 44.2
Q180C6_2000678 MC41157 A0A831LZ79_41157 108-768 2-379 0.84 1.0 0.46 0.95 0.95 0.55 29.8
Q5SDH5_2000968 MC41153 A0A422NH16_41153 14-118 1-106 0.8 1.0 0.79 0.97 0.97 0.9 48.1
P0ACX9_2001301 MC41116 A0A7S4DRI0_41116 6-40 10-44 0.88 0.32 0.67 0.27 0.27 0.77 17.1
P13272_2000211 MC41116 B4MW60_41116 2-127 66-191 0.99 0.66 0.99 0.66 0.66 0.99 75.3
Q63537_2000069 MC41105 A0A1A8GXB9_41105 1-205 23-227 1.0 0.87 0.99 0.87 0.87 0.99 75.1
Q08220_2001464 MC41105 A0A7W0H124_41105 1-168 111-261 1.0 0.58 0.63 0.43 0.43 0.53 16.4
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.