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
Q5SLM7_2001185 MC17108 A0A1J1ELZ2_17108 1-47 9-55 1.0 0.42 1.0 0.42 0.42 1.0 95.7
Q6NW40_2000030 MC1701 I7GDN2_1701 1-69 8-76 1.0 0.36 1.0 0.36 0.36 1.0 98.5
Q9BSD7_2001247 MC16959 A0A448MSL9_16959 2-184 16-153 0.97 0.88 0.47 0.55 0.55 0.45 10.9
P40339_2001633 MC16959 A0A4Y9XTH9_16959 1-65 162-226 1.0 0.26 1.0 0.26 0.26 1.0 63.0
Q5SIP1_2000355 MC16908 A0A7V7BZX4_16908 2-204 4-207 0.99 0.99 0.97 0.96 0.96 0.91 41.6
P02774_2000955 MC16742 A0A6P8SFS3_16742 2-69 316-383 0.94 0.18 0.9 0.17 0.17 0.87 39.7
Q7P0Y9_2001537 MC16629 A0A812UIE5_16629 19-100 104-191 0.82 0.26 0.52 0.18 0.18 0.46 13.4
Q9WXX3_2000860 MC16538 A0A7X3S031_16538 2-281 7-295 0.99 0.97 0.96 0.91 0.91 0.88 34.9
Q47150_2000239 MC16533 W3V6V3_16533 1-45 3-47 1.0 0.54 0.99 0.54 0.54 0.99 84.4
P07598_2001114 MC16479 A0A180F3X5_16479 2-310 47-359 0.99 0.76 0.96 0.74 0.74 0.91 49.5
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.