› 1nd4

X-ray diffraction
2.1Å resolution

Crystal structure of aminoglycoside-3'-phosphotransferase-IIa

Released:
DOI: 10.2210/pdb1nd4/pdb
PDB entry 1nd4 coloured by chain, front view.
PDB entry 1nd4 coloured by chain, side view.
PDB entry 1nd4 coloured by chain, top view.
Source organism: Klebsiella pneumoniae
Primary publication:
The crystal structure of aminoglycoside-3'-phosphotransferase-IIa, an enzyme responsible for antibiotic resistance.
Nurizzo D, Shewry SC, Perlin MH, Brown SA, Dholakia JN, Fuchs RL, Deva T, Baker EN, Smith CA
J Mol Biol 327 491-506 (2003)
PMID: 12628253

Function and Biology Details

Reaction catalysed: 
ATP + kanamycin = ADP + kanamycin 3'-phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132715 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Aminoglycoside 3'-phosphotransferase Chains: A, B
Molecule details ›
Chains: A, B
Length: 264 amino acids
Theoretical weight: 29.08 KDa
Source organism: Klebsiella pneumoniae
Expression system: Escherichia coli
UniProt:
  • Canonical: P00552 (Residues: 1-264; Coverage: 100%)
Gene names: kan, neo, nptII
Sequence domains: Phosphotransferase enzyme family
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand MG 2 x MG
Ligand ACT 2 x ACT
Ligand NA 2 x NA
Ligand KAN 2 x KAN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL7-1
Spacegroup: P21
Unit cell:
a: 43.048Å b: 101.893Å c: 71.972Å
α: 90° β: 105.58° γ: 90°
R-values:
R R work R free
0.206 0.206 0.238
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Mycobacterium abscessus: a new antibiotic nightmare.
Nessar et al. (2012)
6 more

16 mentions without citation

Aminoglycoside modifying enzymes.
Ramirez et al. (2010)
15 more