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
P44783_2000280 MC59596 A0A655SGM1_59596 16-181 2-166 0.88 0.99 0.83 0.94 0.94 0.83 38.9
Q3E833_2001280 MC59519 A0A2V0PJP5_59519 2-77 10-85 0.97 0.85 0.95 0.83 0.83 0.91 22.3
S4RAZ3_2000114 MC59407 A0A452ZPG4_59407 1-97 46-142 1.0 0.68 1.0 0.68 0.68 1.0 94.8
P14598_2001378 MC59407 A0A016W4D4_59407 1-13 28-40 1.0 0.09 0.69 0.09 0.09 0.99 23.0
Q9X1F5_2000670 MC59399 A0A365ZT57_59399 4-110 9-116 0.97 0.89 0.93 0.85 0.85 0.86 17.5
Q8WZC9_2000288 MC5935 A0A409VL31_5935 2-143 19-159 0.99 0.89 0.98 0.88 0.88 0.97 59.1
P02916_2001053 MC59334 D0LWJ2_59334 1-234 8-240 1.0 0.94 0.98 0.93 0.93 0.96 64.9
O34968_2000767 MC59269 A0A1V6A6H5_59269 28-295 1-264 0.9 0.99 0.81 0.89 0.89 0.72 28.7
Q9X005_2000759 MC59243 A0A1Y3PZI0_59243 1-147 1-150 0.94 0.99 0.88 0.91 0.91 0.82 38.0
P9WG29_2001419 MC59215 X8AGI9_59215 2-79 5-82 0.99 0.92 0.93 0.87 0.87 0.99 78.2
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.