› 4tnn

X-ray diffraction
1.95Å resolution

Crystal structure of Escherichia coli protein YodA in complex with Ni - artifact of purification.

Released:
DOI: 10.2210/pdb4tnn/pdb
PDB entry 4tnn coloured by chain, front view.
PDB entry 4tnn coloured by chain, side view.
PDB entry 4tnn coloured by chain, top view.
Source organism: Escherichia coli str. K-12 substr. MC4100
Primary publication:
Protein purification and crystallization artifacts: The tale usually not told.
Niedzialkowska E, Gasiorowska O, Handing KB, Majorek KA, Porebski PJ, Shabalin IG, Zasadzinska E, Cymborowski M, Minor W
Protein Sci 25 720-33 (2016)
PMID: 26660914

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-165189 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Metal-binding lipocalin Chain: A
Molecule details ›
Chain: A
Length: 193 amino acids
Theoretical weight: 22.37 KDa
Source organism: Escherichia coli str. K-12 substr. MC4100
Expression system: Escherichia coli BL21(DE3)
Structure domains: Lipocalin

Ligands and Environments

2 bound ligands:
Ligand SO4 6 x SO4
Ligand NI 1 x NI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-G
Spacegroup: P3121
Unit cell:
a: 76.583Å b: 76.583Å c: 61.944Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.169 0.167 0.215
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

The impact of structural genomics: the first quindecennial.
Grabowski et al. (2016)
1 more

3 mentions without citation

Natively glycosylated HIV-1 Env structure reveals new mode for antibody recognition of the CD4-binding site.
Gristick et al. (2016)
2 more