5VFD

Diazabicyclooctenone ETX2514 bound to Class D beta lactamase OXA-24 from A. baumannii


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

ETX2514 is a broad-spectrum beta-lactamase inhibitor for the treatment of drug-resistant Gram-negative bacteria including Acinetobacter baumannii.

Durand-Reville, T.F.Guler, S.Comita-Prevoir, J.Chen, B.Bifulco, N.Huynh, H.Lahiri, S.Shapiro, A.B.McLeod, S.M.Carter, N.M.Moussa, S.H.Velez-Vega, C.Olivier, N.B.McLaughlin, R.Gao, N.Thresher, J.Palmer, T.Andrews, B.Giacobbe, R.A.Newman, J.V.Ehmann, D.E.de Jonge, B.O'Donnell, J.Mueller, J.P.Tommasi, R.A.Miller, A.A.

(2017) Nat Microbiol 2: 17104-17104

  • DOI: 10.1038/nmicrobiol.2017.104

  • PubMed Abstract: 
  • Multidrug-resistant (MDR) bacterial infections are a serious threat to public health. Among the most alarming resistance trends is the rapid rise in the number and diversity of β-lactamases, enzymes that inactivate β-lactams, a class of antibiotics t ...

    Multidrug-resistant (MDR) bacterial infections are a serious threat to public health. Among the most alarming resistance trends is the rapid rise in the number and diversity of β-lactamases, enzymes that inactivate β-lactams, a class of antibiotics that has been a therapeutic mainstay for decades. Although several new β-lactamase inhibitors have been approved or are in clinical trials, their spectra of activity do not address MDR pathogens such as Acinetobacter baumannii. This report describes the rational design and characterization of expanded-spectrum serine β-lactamase inhibitors that potently inhibit clinically relevant class A, C and D β-lactamases and penicillin-binding proteins, resulting in intrinsic antibacterial activity against Enterobacteriaceae and restoration of β-lactam activity in a broad range of MDR Gram-negative pathogens. One of the most promising combinations is sulbactam-ETX2514, whose potent antibacterial activity, in vivo efficacy against MDR A. baumannii infections and promising preclinical safety demonstrate its potential to address this significant unmet medical need.


    Organizational Affiliation

    Entasis Therapeutics, 35 Gatehouse Drive, Waltham, Massachusetts 02451, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-lactamase
A
244Acinetobacter baumanniiMutation(s): 0 
Gene Names: blaOXA-33 (bla-OXA-40, blaOXA-24, blaOXA-40, oxa-24, oxa40)
Find proteins for Q8RLA6 (Acinetobacter baumannii)
Go to UniProtKB:  Q8RLA6
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
9CP
Query on 9CP

Download SDF File 
Download CCD File 
A
(2S,5R)-1-formyl-4-methyl-5-[(sulfooxy)amino]-1,2,5,6-tetrahydropyridine-2-carboxamide
C8 H13 N3 O6 S
XVMABMMPQCPJKI-BQBZGAKWSA-N
 Ligand Interaction
9CM
Query on 9CM

Download SDF File 
Download CCD File 
A
(2S,5R)-4-methyl-7-oxo-6-(sulfooxy)-1,6-diazabicyclo[3.2.1]oct-3-ene-2-carboxamide
C8 H11 N3 O6 S
WHFPRPRSXFJXMN-WDSKDSINSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
KCX
Query on KCX
A
L-PEPTIDE LINKINGC7 H14 N2 O4LYS
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.206 
  • R-Value Work: 0.179 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 102.680α = 90.00
b = 102.680β = 90.00
c = 84.770γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
XDSdata reduction
PHASERphasing
BUSTERrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-06-07
    Type: Initial release
  • Version 1.1: 2018-12-19
    Type: Data collection, Database references