› 8dvm

X-ray diffraction
2Å resolution

Crystal structure of LRP6 E3E4 in complex with disulfide constrained peptide E3.6

Released:
DOI: 10.2210/pdb8dvm/pdb
PDB entry 8dvm coloured by chain, front view.
PDB entry 8dvm coloured by chain, side view.
PDB entry 8dvm coloured by chain, top view.
Source organisms:
Primary publication:
Synthetic Multivalent Disulfide-Constrained Peptide Agonists Potentiate Wnt1/β-Catenin Signaling via LRP6 Coreceptor Clustering.
Thakur AK, Miller SE, Liau NPD, Hwang S, Hansen S, de Sousa E Melo F, Sudhamsu J, Hannoush RN
ACS Chem Biol (2023)
PMID: 36893429

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-215124 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (5 distinct):
Low-density lipoprotein receptor-related protein 6 Chain: A
Molecule details ›
Chain: A
Length: 633 amino acids
Theoretical weight: 71.77 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: O75581 (Residues: 631-1253; Coverage: 39%)
Gene name: LRP6
Sequence domains:
E3.6 Disulfide constrained peptide Chain: B
Molecule details ›
Chain: B
Length: 30 amino acids
Theoretical weight: 3.47 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer
4 bound ligands:
Ligand NAG 1 x NAG
Ligand CA 3 x CA
Ligand EDO 14 x EDO
Ligand MES 1 x MES
1 modified residue:
Ligand OCS 1 x OCS

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: P212121
Unit cell:
a: 66.462Å b: 102.978Å c: 108.775Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.186 0.22
Expression systems:
  • Trichoplusia ni
  • Not provided

Quick links

Citations

1 mention without citation

Development of Erf-Mediated Craniosynostosis and Pharmacological Amelioration.
Vogiatzi et al. (2023)