› 5efw

X-ray diffraction
2.1Å resolution

Crystal structure of LOV2-Zdk1 - the complex of oat LOV2 and the affibody protein Zdark1

Released:
DOI: 10.2210/pdb5efw/pdb
PDB entry 5efw coloured by chain, front view.
PDB entry 5efw coloured by chain, side view.
PDB entry 5efw coloured by chain, top view.
Source organisms:
Primary publication:
LOVTRAP: an optogenetic system for photoinduced protein dissociation.
Wang H, Vilela M, Winkler A, Tarnawski M, Schlichting I, Yumerefendi H, Kuhlman B, Liu R, Danuser G, Hahn KM
OpenAccess logo Nat Methods 13 755-8 (2016)
PMID: 27427858

Function and Biology Details

Reaction catalysed: 
ATP + a protein = ADP + a phosphoprotein
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129263 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
non-specific serine/threonine protein kinase Chain: A
Molecule details ›
Chain: A
Length: 145 amino acids
Theoretical weight: 16.63 KDa
Source organism: Avena sativa
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O49003 (Residues: 404-546; Coverage: 16%)
Gene name: NPH1-1
Sequence domains: PAS domain
Structure domains: PAS domain
Z-dark, a small protein based on the Z domain affibody Chains: B, C
Molecule details ›
Chains: B, C
Length: 60 amino acids
Theoretical weight: 6.57 KDa
Source organism: Staphylococcus aureus
Expression system: Escherichia coli
Structure domains: Immunoglobulin FC, subunit C

Ligands and Environments


Cofactor: Ligand FMN 1 x FMN
1 bound ligand:
Ligand SO4 6 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P41212
Unit cell:
a: 54.7Å b: 54.7Å c: 188.03Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.204 0.202 0.257
Expression systems:
  • Escherichia coli BL21(DE3)
  • Escherichia coli

Quick links

Citations

46 review citations

Affibody Molecules in Biotechnological and Medical Applications.
Ståhl et al. (2017)
45 more

5 mentions without citation

Optically inducible membrane recruitment and signaling systems.
Hannanta-Anan et al. (2019)
4 more