› 6byn

X-ray diffraction
2.69Å resolution

Crystal structure of WDR5-Mb(S4) monobody complex

Released:
DOI: 10.2210/pdb6byn/pdb
PDB entry 6byn coloured by chain, front view.
PDB entry 6byn coloured by chain, side view.
PDB entry 6byn coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Facile target validation in an animal model with intracellularly expressed monobodies.
Gupta A, Xu J, Lee S, Tsai ST, Zhou B, Kurosawa K, Werner MS, Koide A, Ruthenburg AJ, Dou Y, Koide S
Nat Chem Biol 14 895-900 (2018)
PMID: 30013062

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-158489 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
WD repeat-containing protein 5 Chain: W
Molecule details ›
Chain: W
Length: 306 amino acids
Theoretical weight: 33.65 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61964 (Residues: 31-334; Coverage: 91%)
Gene names: BIG3, WDR5
Sequence domains: WD domain, G-beta repeat
Structure domains: YVTN repeat-like/Quinoprotein amine dehydrogenase
WDR5-binding Monobody, Mb(S4) Chain: M
Molecule details ›
Chain: M
Length: 98 amino acids
Theoretical weight: 10.44 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
Structure domains: Immunoglobulins

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: C2
Unit cell:
a: 79.078Å b: 48.266Å c: 99.825Å
α: 90° β: 107.741° γ: 90°
R-values:
R R work R free
0.217 0.216 0.248
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

Advances in targeted degradation of endogenous proteins.
Röth et al. (2019)
5 more

3 mentions without citation

Monobodies as tool biologics for accelerating target validation and druggable site discovery.
Akkapeddi et al. (2021)
2 more