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
2.102.20 MC60329 A0A366NH90_60329 2-178 14-190 0.99 0.75 0.94 0.72 0.72 0.87 43.0
3.40.1850 MC60293 A0A379WS42_60293 1-75 92-166 1.0 0.41 0.98 0.41 0.41 0.97 98.6
3.90.920 MC6009 A0A450ZL79_6009 5-160 67-249 0.91 0.31 0.63 0.21 0.21 0.6 12.0
3.55.30 MC59971 A0A2X3K1W8_59971 2-168 1-171 0.99 0.98 0.99 0.95 0.95 0.97 96.4
3.60.9 MC59966 A0A1W2BRB2_59966 10-178 1-168 0.8 0.99 0.78 0.98 0.98 0.73 45.5
2.30.320 MC59928 A0A430HQT9_59928 2-251 5-279 0.98 0.99 0.89 0.81 0.81 0.75 32.0
1.10.340 MC5978 L8Y6R2_5978 1-78 5-76 0.8 0.37 0.64 0.34 0.34 0.63 17.9
1.20.1540 MC59596 A0A655SGM1_59596 13-178 2-166 0.92 0.99 0.89 0.96 0.96 0.87 46.9
3.20.16 MC59589 A0A359AL59_59589 4-159 3-138 0.85 0.98 0.43 0.54 0.54 0.39 6.5
2.80.20 MC59564 A0A0F9JFU3_59564 1-125 32-145 0.86 0.7 0.51 0.46 0.46 0.48 13.8
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.