4WZ5

Crystal structure of P. aeruginosa OXA10


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.190 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

4,5-Disubstituted 6-Aryloxy-1,3-dihydrobenzo[c][1,2]oxaboroles Are Broad-Spectrum Serine beta-Lactamase Inhibitors.

McKinney, D.C.Zhou, F.Eyermann, C.J.Ferguson, A.D.Prince, D.B.Breen, J.Giacobbe, R.A.Lahiri, S.Verheijen, J.C.

(2015) Acs Infect Dis. 1: 310-316

  • DOI: 10.1021/acsinfecdis.5b00031
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Bacterially expressed β-lactamases are rapidly eroding the clinical utility of the important β-lactam class of antibacterials, significantly impairing our ability to fight serious bacterial infections. This paper describes a study of oxaborole-derive ...

    Bacterially expressed β-lactamases are rapidly eroding the clinical utility of the important β-lactam class of antibacterials, significantly impairing our ability to fight serious bacterial infections. This paper describes a study of oxaborole-derived β-lactamase inhibitors in which crystal structures and computational modeling aided in the rational design of analogues with improved spectrum of activity against class A, C, and D enzymes. Crystal structures of two of these inhibitors covalently bound to two different serine β-lactamases, class C Pseudomonas aeruginosa AmpC and class D OXA-10, are described herein. Improved physicochemical properties as well as increased activity against an array of β-lactamases resulted in substantial restoration of susceptibility to ceftazidime in Escherichia coli and Klebsiella pneumoniae.


    Organizational Affiliation

    Infection Innovative Medicines, AstraZeneca R&D Boston , 35 Gatehouse Drive, Waltham Massachusetts 02451, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-lactamase OXA-10
A, B
248Pseudomonas aeruginosaMutation(s): 0 
Gene Names: bla (oxa10, pse2)
EC: 3.5.2.6
Find proteins for P14489 (Pseudomonas aeruginosa)
Go to UniProtKB:  P14489
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Beta-lactamase OXA-10
C, D
248Pseudomonas aeruginosaMutation(s): 0 
Gene Names: bla (oxa10, pse2)
EC: 3.5.2.6
Find proteins for P14489 (Pseudomonas aeruginosa)
Go to UniProtKB:  P14489
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
3VU
Query on 3VU

Download SDF File 
Download CCD File 
A, B
{(3R)-6-[(3-amino-1,2,4-thiadiazol-5-yl)oxy]-1-hydroxy-4,5-dimethyl-1,3-dihydro-2,1-benzoxaborol-3-yl}acetic acid
C13 H14 B N3 O5 S
CXFHZAGALDYYDH-SECBINFHSA-N
 Ligand Interaction
SO4
Query on SO4

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Download CCD File 
A, B, C, D
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CO2
Query on CO2

Download SDF File 
Download CCD File 
C, D
CARBON DIOXIDE
C O2
CURLTUGMZLYLDI-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
KCX
Query on KCX
A, B
L-PEPTIDE LINKINGC7 H14 N2 O4LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.208 
  • R-Value Work: 0.190 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 65.740α = 90.00
b = 82.350β = 94.54
c = 102.380γ = 90.00
Software Package:
Software NamePurpose
Aimlessdata scaling
Cootmodel building
MOLREPphasing
BUSTERrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2014-11-18 
  • Released Date: 2015-08-05 
  • Deposition Author(s): Ferguson, A.D.

Revision History 

  • Version 1.0: 2015-08-05
    Type: Initial release
  • Version 1.1: 2016-09-28
    Type: Database references