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
P16059_2000301 MC39120 A0A3P6C2H3_39120 1-185 25-209 1.0 0.88 0.99 0.88 0.88 0.99 79.4
Q9X1V7_2000901 MC39120 A0A4U0H6A2_39120 1-121 55-197 0.93 0.72 0.66 0.46 0.46 0.57 12.5
Q13485_2000735 MC39098 A0A6P8Z4L8_39098 1-125 32-156 1.0 0.69 1.0 0.69 0.69 0.99 96.0
P75364_2001108 MC39028 A0A3Q3AML9_39028 9-121 5-85 0.88 0.92 0.39 0.51 0.51 0.44 12.3
P34704_2001229 MC39005 H3FIN9_39005 5-127 14-135 0.84 0.9 0.76 0.82 0.82 0.76 27.6
Q923G3_2000922 MC38979 A0A6A3KNX3_38979 31-247 1-225 0.88 1.0 0.84 0.93 0.93 0.88 50.2
Q9WZ31_2000194 MC38808 A0A814X2R6_38808 17-226 2-214 0.9 0.65 0.84 0.6 0.6 0.78 31.9
Q9Y5C1_2000846 MC38757 C3XYQ0_38757 34-204 1-180 0.8 1.0 0.71 0.83 0.83 0.66 34.4
P40727_2000587 MC38742 X1WNK7_38742 1-84 14-97 1.0 0.84 0.99 0.84 0.84 0.99 82.1
P80484_2001017 MC3873 A0A3P8JU29_3873 10-155 21-173 0.94 0.64 0.27 0.2 0.2 0.5 9.3
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.