6UQS

Serendipitous Discovery of Aryl Boronic Acids as beta-Lactamase Inhibitors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.37 Å
  • R-Value Free: 0.177 
  • R-Value Work: 0.154 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Serendipitous discovery of aryl boronic acids as beta-lactamase inhibitors.

Yang, S.W.Pan, J.Root, Y.Scapin, G.Xiao, L.Su, J.

(2020) Bioorg.Med.Chem.Lett. 30: 126795-126795

  • DOI: 10.1016/j.bmcl.2019.126795
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • High throughput screening for β-lactamase inhibitors afforded biphenyl hits such as 1. Hit confirmation and X-ray soaking experiments with Pseudomonas Aeruginosa AmpC enzyme led to the identification of an aryl boronic acid-serine complex 4, which wa ...

    High throughput screening for β-lactamase inhibitors afforded biphenyl hits such as 1. Hit confirmation and X-ray soaking experiments with Pseudomonas Aeruginosa AmpC enzyme led to the identification of an aryl boronic acid-serine complex 4, which was formed from phenyl boronic acid 8 (an impurity in compound 1) and ethylene glycol (the cryoprotectant in the soaking experiment).


    Organizational Affiliation

    Discovery Chemistry, Merck & Co., Inc., Kenilworth, NJ 07033, USA. Electronic address: jing.su2@merck.com.,Discovery Chemistry, Merck & Co., Inc., Kenilworth, NJ 07033, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Beta-lactamase
A
375Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)Mutation(s): 1 
Gene Names: ampC
EC: 3.5.2.6
Find proteins for P24735 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Go to UniProtKB:  P24735
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
QFP
Query on QFP

Download SDF File 
Download CCD File 
A
2-hydroxyethyl hydrogen phenylboronate
C8 H11 B O3
MCBDCMMJWCRCFZ-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

Download SDF File 
Download CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.37 Å
  • R-Value Free: 0.177 
  • R-Value Work: 0.154 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 44.744α = 90.00
b = 72.168β = 90.00
c = 105.218γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
REFMACphasing
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2019-10-21 
  • Released Date: 2019-10-30 
  • Deposition Author(s): Scapin, G.

Revision History 

  • Version 1.0: 2019-10-30
    Type: Initial release
  • Version 1.1: 2019-12-04
    Type: Database references
  • Version 1.2: 2020-01-15
    Type: Database references