› 7p9p

X-ray diffraction
2.11Å resolution

N-acetylglucosamine kinase from Plesiomonas shigelloides compexed with alpha-N-acetylglucosamine and AMP-PNP inhibitor

Released:
DOI: 10.2210/pdb7p9p/pdb
PDB entry 7p9p coloured by chain, front view.
PDB entry 7p9p coloured by chain, side view.
PDB entry 7p9p coloured by chain, top view.
Source organisms:
Primary publication:
Spinning sugars in antigen biosynthesis: characterization of the Coxiella burnetii and Streptomyces griseus TDP-sugar epimerases
Cross AR, Roy S, Vivoli Vega M, Rejzek M, Nepogodiev SA, Cliff M, Salmon D, Isupov MN, Field RA, Prior JL, Harmer NJ
J. Biol. Chem. (2022)

Function and Biology Details

Reaction catalysed: 
ATP + N-acetyl-D-glucosamine = ADP + N-acetyl-D-glucosamine 6-phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-171339 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
N-acetyl-D-glucosamine kinase; Ubiquitin-like protein SMT3 Chains: AAA, BBB
Molecule details ›
Chains: AAA, BBB
Length: 417 amino acids
Theoretical weight: 45.96 KDa
Source organisms: Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q12306 (Residues: 2-96; Coverage: 94%)
  • Canonical: R8APY9 (Residues: 1-302; Coverage: 100%)
Gene names: D9719.15, PLESHI_11010, SMT3, YDR510W, nagK
Sequence domains:

Ligands and Environments

7 bound ligands:
Ligand ZN 4 x ZN
Ligand ANP 2 x ANP
Ligand PEG 3 x PEG
Ligand PGE 2 x PGE
Ligand NDG 2 x NDG
Ligand EDO 15 x EDO
Ligand K 2 x K
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P3221
Unit cell:
a: 115.202Å b: 115.202Å c: 120.36Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.194 0.191 0.233
Expression system: Escherichia coli BL21(DE3)

Quick links