› 5daj

X-ray diffraction
2.65Å resolution

Crystal structure of NalD, the secondary repressor of MexAB-OprM multidrug efflux pump in Pseudomonas aeruginosa

Released:
DOI: 10.2210/pdb5daj/pdb
PDB entry 5daj coloured by chain, front view.
PDB entry 5daj coloured by chain, side view.
PDB entry 5daj coloured by chain, top view.
Source organism: Pseudomonas aeruginosa PAO1
Primary publication:
Novobiocin binding to NalD induces the expression of the MexAB-OprM pump in Pseudomonas aeruginosa.
Chen W, Wang D, Zhou W, Sang H, Liu X, Ge Z, Zhang J, Lan L, Yang CG, Chen H
Mol Microbiol 100 749-58 (2016)
PMID: 26844397

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-191133 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
HTH tetR-type domain-containing protein Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 212 amino acids
Theoretical weight: 24.84 KDa
Source organism: Pseudomonas aeruginosa PAO1
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9HY46 (Residues: 1-212; Coverage: 100%)
Gene names: PA3574, nalD
Sequence domains:
Structure domains: Tetracycline Repressor, domain 2

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 48 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P212121
Unit cell:
a: 61.639Å b: 128.137Å c: 266.063Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.213 0.21 0.266
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

Antibiotics: Pharmacokinetics, toxicity, resistance and multidrug efflux pumps.
Yılmaz et al. (2017)
5 more

2 mentions without citation

Systems-level analysis of NalD mutation, a recurrent driver of rapid drug resistance in acute Pseudomonas aeruginosa infection.
Yan et al. (2019)
1 more