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› 5dju

X-ray diffraction
2.1Å resolution

Crystal structure of LOV2 (C450A) domain in complex with Zdk3

Released:
DOI: 10.2210/pdb5dju/pdb
Model geometry
Fit model/data
PDB entry 5dju coloured by chain, front view.
PDB entry 5dju coloured by chain, side view.
PDB entry 5dju 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: 
(1) L-seryl-[protein] + ATP = O-phospho-L-seryl-[protein] + ADP + H(+).
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-129265 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Engineered protein, Zdk3 affibody Chains: B, D
Molecule details ›
Chains: B, D
Length: 61 amino acids
Theoretical weight: 6.82 KDa
Source organism: Staphylococcus aureus
Expression system: Escherichia coli
Structure domains: Immunoglobulin FC, subunit C
non-specific serine/threonine protein kinase Chains: A, C
Molecule details ›
Chains: A, C
Length: 145 amino acids
Theoretical weight: 16.63 KDa
Source organism: Avena sativa
Expression system: Escherichia coli
UniProt:
  • Canonical: O49004 (Residues: 407-549; Coverage: 15%)
Gene name: NPH1-2
Sequence domains: PAS domain
Structure domains: PAS domain

Ligands and Environments


Cofactor: Ligand FMN 2 x FMN
1 bound ligand:
Ligand CL 5 x CL
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: SLS BEAMLINE X10SA
Spacegroup: P212121
Unit cell:
a: 74.24Å b: 74.5Å c: 81.91Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.208 0.205 0.258
Expression system: Escherichia coli

Quick links

Citations

47 review citations

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

1 mention without citation

LOVTRAP: an optogenetic system for photoinduced protein dissociation.
Wang et al. (2016)