5ZZK

A Con Artist: Phenylphenoxybenzamide is not a Glycosyltransferase Inhibitor

• PDB DOI: https://doi.org/10.2210/pdb5ZZK/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Staphylococcus aureus subsp. aureus Mu50
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 2018-06-02 Released: 2018-06-20 
• Deposition Author(s): Wybenga, G.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.64 Å
• R-Value Free: 0.327 
• R-Value Work: 0.245 
• R-Value Observed: 0.249 

Starting Model: experimental

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 3VMQ

Literature

A Con Artist: Phenylphenoxybenzamide is not a Glycosyltransferase Inhibitor

Wybenga, G.G., Wu, W.S.

(2018) bioRxiv 

• DOI: https://doi.org/10.1101/292912

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 28.43 kDa 
• Atom Count: 1,503 
• Modelled Residue Count: 182 
• Deposited Residue Count: 246 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Monofunctional glycosyltransferase	A	246	Staphylococcus aureus subsp. aureus Mu50	Mutation(s): 0  Gene Names: mgt, SAV1874 EC: 2.4.1.129 (PDB Primary Data), 2.4.99.28 (UniProt) Membrane Entity: Yes
UniProt
Find proteins for Q99T05 (Staphylococcus aureus (strain Mu50 / ATCC 700699)) Explore Q99T05  Go to UniProtKB:  Q99T05

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.64 Å
• R-Value Free: 0.327 
• R-Value Work: 0.245 
• R-Value Observed: 0.249 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 153.88	α = 90
b = 39.64	β = 90
c = 55.83	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
iMOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-06-20 
Deposition Author(s): Wybenga, G.G.

Revision History  

• Version 1.0: 2018-06-20
  Type: Initial release
  
• Version 1.1: 2019-01-02
  Changes: Data collection, Database references
• Version 1.2: 2023-11-22
  Changes: Data collection, Database references, Refinement description