› 6ndz

X-ray diffraction
2.26Å resolution

Designed repeat protein in complex with Fz8

Released:
DOI: 10.2210/pdb6ndz/pdb
PDB entry 6ndz coloured by chain, front view.
PDB entry 6ndz coloured by chain, side view.
PDB entry 6ndz coloured by chain, top view.
Source organisms:
Primary publication:
Receptor subtype discrimination using extensive shape complementary designed interfaces.
Dang LT, Miao Y, Ha A, Yuki K, Park K, Janda CY, Jude KM, Mohan K, Ha N, Vallon M, Yuan J, Vilches-Moure JG, Kuo CJ, Garcia KC, Baker D
Nat Struct Mol Biol 26 407-414 (2019)
PMID: 31086346

Function and Biology Details

Biochemical function:
  • not assigned
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-167119 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Frizzled-8 Chains: A, C, E
Molecule details ›
Chains: A, C, E
Length: 125 amino acids
Theoretical weight: 14.6 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q9H461 (Residues: 32-150; Coverage: 18%)
Gene name: FZD8
Sequence domains: Fz domain
Designed repeat binding protein Chains: B, D, F
Molecule details ›
Chains: B, D, F
Length: 200 amino acids
Theoretical weight: 20.86 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
Structure domains: Ankyrin repeat-containing domain

Ligands and Environments

3 bound ligands:
Ligand MPD 4 x MPD
Ligand ACT 4 x ACT
Ligand ACY 2 x ACY
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.1
Spacegroup: P212121
Unit cell:
a: 79.93Å b: 109.015Å c: 114.373Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.213 0.212 0.238
Expression systems:
  • Trichoplusia ni
  • Escherichia coli

Quick links

Citations

3 review citations

Protein Assembly by Design.
Zhu et al. (2021)
2 more

3 mentions without citation

Next-Generation Surrogate Wnts Support Organoid Growth and Deconvolute Frizzled Pleiotropy In Vivo.
Miao et al. (2020)
2 more