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.

CATH Fold MCID DPC Target Q.Range T.Range Q.Cov T.Cov Q.TM-Score T.TM-Score A.TM-Score lDDT pIdent
1.10.300 MC3621 A0A0B8PU01_3621 1-100 35-134 1.0 0.68 0.99 0.67 0.67 0.99 78.0
3.30.1470 MC36165 A0A388JWN2_36165 25-140 1-116 0.82 1.0 0.81 0.98 0.98 0.86 84.4
2.40.370 MC36121 A0A7W0UZL0_36121 1-127 108-243 1.0 0.56 0.89 0.48 0.48 0.81 33.0
3.40.1120 MC36037 A0A517LBK4_36037 1-190 1-190 0.97 1.0 0.97 0.99 0.99 0.95 84.2
3.30.990 MC3596 A0A7C6SC94_3596 31-180 3-152 0.83 0.99 0.82 0.97 0.97 0.78 38.6
4.10.910 MC35815 A0A800JCF6_35815 2-46 86-130 0.96 0.35 0.91 0.34 0.34 0.93 68.8
3.90.1030 MC35756 A0A803YPC9_35756 5-127 1-123 0.86 1.0 0.85 0.99 0.99 0.93 87.8
3.90.1110 MC35464 A0A378H1C1_35464 1-179 64-355 1.0 0.56 0.99 0.34 0.34 0.95 60.2
2.30.290 MC353 A0A7V1LJ33_353 12-136 1-113 0.89 1.0 0.72 0.88 0.88 0.72 23.6
1.20.1430 MC3511 A0A328SR31_3511 4-111 21-143 0.81 0.86 0.52 0.49 0.49 0.45 10.4
Legend
  • Agreement between CATH Folds and DPCstruct Metacluster Domains:
  • CATH Fold: CATH 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.