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
1.10.286 MC9000 A0A318Y1G7_9000 5-84 72-144 0.94 0.48 0.26 0.18 0.18 0.54 12.5
1.20.970 MC8996 A0A2Y9DF54_8996 2-58 38-94 0.97 0.16 0.94 0.16 0.16 0.93 63.1
3.30.565 MC8988 A0A143G8Y3_8988 39-209 2-98 0.82 0.97 0.16 0.29 0.29 0.0 8.9
3.30.1070 MC8986 A0A3N1P819_8986 2-56 14-62 0.98 0.79 0.61 0.56 0.56 0.64 12.0
1.20.870 MC8983 A0A818G1K8_8983 3-135 9-128 0.98 0.6 0.58 0.42 0.42 0.54 17.6
1.25.50 MC8970 A0A453IZU5_8970 5-327 18-422 0.99 0.93 0.2 0.15 0.15 0.0 10.0
2.120.10 MC8965 A0A6V7X2A4_8965 36-327 3-277 0.89 0.53 0.24 0.18 0.18 0.0 9.4
1.10.8 MC8957 A0A061HPT9_8957 2-90 98-186 0.97 0.48 0.95 0.47 0.47 0.93 61.7
6.10.220 MC8957 A0A6I9NRI7_8957 5-126 26-157 0.95 0.82 0.48 0.39 0.39 0.69 16.7
4.10.91 MC8947 A0A2R6WJ15_8947 2-52 1-49 0.88 0.82 0.6 0.58 0.58 0.75 25.4
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.