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
O25025_2001133 MC18985 A0A1U7LPY4_18985 4-79 73-148 0.95 0.35 0.58 0.25 0.25 0.68 9.2
P0A962_2000995 MC18982 A0A0A2W3Q6_18982 26-315 1-290 0.87 1.0 0.86 1.0 1.0 0.9 93.4
P24559_2001248 MC1896 A0A538E7N0_1896 1-164 115-279 1.0 0.57 0.99 0.56 0.56 0.98 63.6
Q59560_2001249 MC1896 A0A516AGC1_1896 1-232 104-337 1.0 0.66 0.98 0.64 0.64 0.95 52.5
P0AAC8_2001177 MC18924 A0A7J7AI40_18924 1-97 6-102 1.0 0.91 0.98 0.89 0.89 0.95 68.0
W8SY74_2000542 MC18911 A0A2G2X906_18911 1-736 8-313 0.99 0.98 0.33 0.76 0.76 0.61 30.6
Q6P1I3_2000907 MC18903 A0A7J5ZF82_18903 2-171 85-254 0.99 0.51 0.95 0.49 0.49 0.94 63.5
A6LCL9_2001404 MC18855 A0A0M3CD15_18855 2-126 28-157 0.98 0.79 0.96 0.74 0.74 0.93 30.7
Q6IMN6_2000041 MC18709 S9XQ26_18709 1-132 53-184 1.0 0.72 1.0 0.72 0.72 1.0 100.0
Q6FX55_2001369 MC18709 A0A7V3AGF9_18709 9-200 1-134 0.85 1.0 0.5 0.8 0.8 0.51 16.6
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.