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
Q52349_2001116 MC55587 Q9AMP4_55587 1-194 46-239 1.0 0.54 0.97 0.53 0.53 0.92 51.7
Q9UNA4_2000875 MC55564 E0CZD6_55564 1-44 9-52 1.0 0.41 1.0 0.41 0.41 1.0 95.4
Q9SSV1_2000416 MC5553 A0A834WRW4_5553 3-202 12-212 0.98 0.48 0.97 0.47 0.47 0.93 59.4
Q28PN4_2000914 MC55319 A0A562UYQ5_55319 6-183 1-165 0.97 0.91 0.8 0.8 0.8 0.74 25.8
Q9BUH6_2000797 MC55176 A0A5F5XSC5_55176 1-109 4-112 1.0 0.47 0.97 0.46 0.46 0.95 84.4
Q9H9Q4_2000962 MC55176 A0A6P4ZKD3_55176 1-47 111-157 1.0 0.25 0.99 0.25 0.25 1.0 38.2
Q9LCX3_2000770 MC55126 A0A1J0LVJ1_55126 56-454 1-399 0.85 1.0 0.85 1.0 1.0 0.93 89.7
Q96BD6_2000089 MC55086 A0A7R8XHU5_55086 14-202 1-189 0.94 0.99 0.93 0.99 0.99 0.95 71.4
P24665_2001461 MC55086 A0A535Y0U1_55086 2-168 55-225 0.98 0.76 0.87 0.66 0.66 0.74 28.2
P11177_2001098 MC54961 A0A2B4RCF5_54961 2-190 19-207 1.0 0.89 0.99 0.89 0.89 0.99 82.5
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.