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
P52657_2000783 MC25177 A0A6J0HE06_25177 1-46 48-93 1.0 0.46 0.99 0.46 0.46 1.0 97.8
Q90WC0_2000583 MC25176 A0A3P9AW71_25176 1-73 20-93 1.0 0.77 0.93 0.71 0.71 0.89 50.0
A0A0H2WCA9_2000215 MC25161 Q5NMB1_25161 79-411 2-333 0.8 1.0 0.75 0.93 0.93 0.79 25.8
P38801_2001389 MC24996 A5DIL7_24996 1-117 3-118 0.99 0.67 0.79 0.56 0.56 0.87 30.5
Q9PRA0_2001439 MC24982 A0A3A5JAZ2_24982 1-105 36-118 0.9 0.68 0.55 0.52 0.52 0.54 13.0
P37554_2000171 MC24969 A0A3D5TLD2_24969 1-49 1-49 0.89 1.0 0.89 1.0 1.0 0.96 89.7
P04191_2000048 MC24950 A0A674NJ35_24950 1-115 99-213 1.0 0.47 1.0 0.47 0.47 1.0 87.8
Q1PS67_2001296 MC24803 A0A1Y1V897_24803 6-237 108-337 0.98 0.65 0.82 0.56 0.56 0.72 20.1
A9CJC8_2001634 MC24783 A0A285UCP6_24783 10-91 3-85 0.84 0.98 0.78 0.89 0.89 0.85 37.3
P0A1J1_2000240 MC2475 A0A660Y2X7_2475 2-290 61-180 0.99 0.61 0.35 0.51 0.51 0.62 11.0
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.