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
P39805_2001214 MC35989 A0A0A2VYV0_35989 1-106 106-211 0.99 0.49 0.96 0.49 0.49 0.92 50.0
Q9HYN5_2000843 MC35957 A0A1I2JB94_35957 4-111 4-105 0.95 0.97 0.71 0.76 0.76 0.64 16.8
Q4WA18_2001532 MC3595 A0A0F8UNN1_3595 93-671 3-578 0.81 0.99 0.78 0.95 0.95 0.88 72.9
Q9CA19_2000033 MC35815 A0A803QKT1_35815 1-91 10-100 1.0 0.72 0.98 0.71 0.71 0.96 45.0
Q8H1D4_2000627 MC35708 A0A654FK68_35708 2-71 23-92 0.99 0.68 0.98 0.68 0.68 0.99 100.0
Q4VC44_2001141 MC35589 B3KRZ0_35589 1-80 6-85 1.0 0.67 1.0 0.67 0.67 1.0 97.5
Q57562_2001181 MC3557 A0A7J7HPR4_3557 1-36 89-124 1.0 0.29 0.94 0.28 0.28 0.98 44.4
Q57562_2000470 MC3557 A0A2G9LNS7_3557 1-52 28-79 1.0 0.4 0.98 0.4 0.4 0.96 42.3
Q5SMG8_2000095 MC35498 A0A812ZCL8_35498 1-173 2-175 1.0 0.99 0.96 0.95 0.95 0.88 32.7
P10646_2000414 MC35435 G3HRJ5_35435 1-58 26-83 1.0 0.7 0.99 0.7 0.7 0.99 87.9
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.