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
Q9NSA3_2000681 MC2316 A0A4W3H5U2_2316 1-70 9-78 1.0 0.86 0.81 0.72 0.72 0.97 87.1
Q6CXL8_2000662 MC23091 A0A1E3QHJ6_23091 1-123 8-130 1.0 0.76 1.0 0.76 0.76 1.0 87.8
Q9YBS9_2000905 MC23088 A0A4D9DE86_23088 2-134 7-168 0.99 0.96 0.96 0.77 0.77 0.88 30.8
P04637_2000306 MC23076 A0A388KAZ1_23076 1-30 1-30 0.97 0.08 0.87 0.08 0.08 0.92 10.0
P08657_2000705 MC2299 A0A7C8M7D1_2299 1-33 43-75 1.0 0.43 0.98 0.42 0.42 0.98 39.3
Q9Y3C7_2001638 MC22932 Q6GQA1_22932 4-108 2-106 0.93 0.98 0.93 0.98 0.98 0.97 95.2
Q87LT3_2000987 MC22745 A0A2Z6IMH2_22745 1-146 9-153 0.87 0.93 0.76 0.82 0.82 0.68 24.4
Q48152_2000243 MC22741 A0A2X1YG87_22741 3-158 125-222 0.99 0.41 0.33 0.23 0.23 0.53 15.2
Q9FJ98_2000178 MC22716 A0A395J8P2_22716 1-75 1-75 0.97 1.0 0.96 0.99 0.99 0.97 68.0
P29468_2000598 MC22675 A0A060SN39_22675 1-150 176-325 1.0 0.44 1.0 0.44 0.44 1.0 66.0
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.