1B87

CRYSTAL STRUCTURE OF AN AMINOGLYCOSIDE 6'-N-ACETYLTRANSFERASE

• PDB DOI: https://doi.org/10.2210/pdb1B87/pdb

• Classification: TRANSFERASE
• Organism(s): Enterococcus faecium
• Mutation(s): No 


• Deposited: 1999-02-09 Released: 1999-06-30 
• Deposition Author(s): Wybenga-Groot, L.E., Berghuis, A.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.234 
• R-Value Work: 0.188 

Literature

Crystal structure of an aminoglycoside 6'-N-acetyltransferase: defining the GCN5-related N-acetyltransferase superfamily fold.

Wybenga-Groot, L.E., Draker, K., Wright, G.D., Berghuis, A.M.

(1999) Structure 7: 497-507

• PubMed: 10378269 
• DOI: https://doi.org/10.1016/s0969-2126(99)80066-5
• Primary Citation of Related Structures:  
  1B87


• PubMed Abstract: 
  

  The predominant mechanism of antibiotic resistance employed by pathogenic bacteria against the clinically used aminoglycosides is chemical modification of the drug. The detoxification reactions are catalyzed by enzymes that promote either the phosphorylation, adenylation or acetylation of aminoglycosides. Structural studies of these aminoglycoside-modifying enzymes may assist in the development of therapeutic agents that could circumvent antibiotic resistance. In addition, such studies may shed light on the development of antibiotic resistance and the evolution of different enzyme classes.

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Organizational Affiliation: 

Department of Biochemistry, McMaster University, Hamilton, ON, Canada.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 21.41 kDa 
• Atom Count: 1,531 
• Modelled Residue Count: 181 
• Deposited Residue Count: 181 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (AMINOGLYCOSIDE N6'-ACETYLTRANSFERASE TYPE 1)	A	181	Enterococcus faecium	Mutation(s): 0
UniProt
Find proteins for Q47764 (Enterococcus faecium) Explore Q47764  Go to UniProtKB:  Q47764

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACO	B [auth A]	ACETYL COENZYME *A C23 H38 N7 O17 P3 S ZSLZBFCDCINBPY-ZSJPKINUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.234 
• R-Value Work: 0.188 
• Space Group: I 4₁ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 146.96	α = 90
b = 146.96	β = 90
c = 146.96	γ = 90

Software Package:

Software Name	Purpose
SOLVE	phasing
SHARP	phasing
X-PLOR	refinement
MOSFLM	data reduction
CCP4	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-06-30 
Deposition Author(s): Wybenga-Groot, L.E., Berghuis, A.M.

Revision History  

• Version 1.0: 1999-06-30
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations