4E1K

GlmU in complex with a Quinazoline Compound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.245 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

An aminoquinazoline inhibitor of the essential bacterial cell wall synthetic enzyme GlmU has a unique non-protein-kinase-like binding mode.

Larsen, N.A.Nash, T.J.Morningstar, M.Shapiro, A.B.Joubran, C.Blackett, C.J.Patten, A.D.Boriack-Sjodin, P.A.Doig, P.

(2012) Biochem.J. 446: 405-413

  • DOI: 10.1042/BJ20120596

  • PubMed Abstract: 
  • GlmU is a bifunctional enzyme with acetyltransferase and uridyltransferase activities, and is essential for the biosynthesis of the bacterial cell wall. Inhibition results in a loss of cell viability. GlmU is therefore considered a potential target f ...

    GlmU is a bifunctional enzyme with acetyltransferase and uridyltransferase activities, and is essential for the biosynthesis of the bacterial cell wall. Inhibition results in a loss of cell viability. GlmU is therefore considered a potential target for novel antibacterial agents. A HTS (high-throughput screen) identified a series of aminoquinazolines with submicromolar potency against the uridyltransferase reaction. Biochemical and biophysical characterization showed competition with UTP binding. We determined the crystal structure of a representative aminoquinazoline bound to the Haemophilus influenzae isoenzyme at a resolution of 2.0 Å. The inhibitor occupies part of the UTP site, skirts the outer perimeter of the GlcNAc1-P (N-acetylglucosamine-1-phosphate) pocket and anchors a hydrophobic moiety into a lipophilic pocket. Our SAR (structure-activity relationship) analysis shows that all of these interactions are essential for inhibitory activity in this series. The crystal structure suggests that the compound would block binding of UTP and lock GlmU in an apo-enzyme-like conformation, thus interfering with its enzymatic activity. Our lead generation effort provides ample scope for further optimization of these compounds for antibacterial drug discovery.


    Organizational Affiliation

    Discovery Sciences Unit, AstraZeneca R&D Boston, Waltham, MA 02451, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Bifunctional protein GlmU
A
456Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)Mutation(s): 0 
Gene Names: glmU
Find proteins for P43889 (Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd))
Go to UniProtKB:  P43889
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
0N5
Query on 0N5

Download SDF File 
Download CCD File 
A
N-{4-[(7-hydroxy-6-methoxyquinazolin-4-yl)amino]phenyl}benzamide
C22 H18 N4 O3
FRAOYGZBTRQIIP-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
PG4
Query on PG4

Download SDF File 
Download CCD File 
A
TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
0N5IC50: 260 nM BINDINGMOAD
0N5Kd: 500 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.245 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 109.028α = 90.00
b = 109.028β = 90.00
c = 323.602γ = 120.00
Software Package:
Software NamePurpose
CrystalCleardata collection
CrystalCleardata reduction
REFMACrefinement
CrystalCleardata scaling
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2012-03-06 
  • Released Date: 2013-05-29 
  • Deposition Author(s): Larsen, N.A., Doig, P.

Revision History 

  • Version 1.0: 2013-05-29
    Type: Initial release