Potent Inhibitors of LpxC for the Treatment of Gram-Negative Infections

Experimental Data Snapshot

  • Resolution: 2.00 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.193 

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Potent inhibitors of LpxC for the treatment of Gram-negative infections.

Brown, M.F.Reilly, U.Abramite, J.A.Arcari, J.T.Oliver, R.Barham, R.A.Che, Y.Chen, J.M.Collantes, E.M.Chung, S.W.Desbonnet, C.Doty, J.Doroski, M.Engtrakul, J.J.Harris, T.M.Huband, M.Knafels, J.D.Leach, K.L.Liu, S.Marfat, A.Marra, A.McElroy, E.Melnick, M.Menard, C.A.Montgomery, J.I.Mullins, L.Noe, M.C.O'Donnell, J.Penzien, J.Plummer, M.S.Price, L.M.Shanmugasundaram, V.Thoma, C.Uccello, D.P.Warmus, J.S.Wishka, D.G.

(2012) J Med Chem 55: 914-923

  • DOI: 10.1021/jm2014748
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • In this paper, we present the synthesis and SAR as well as selectivity, pharmacokinetic, and infection model data for representative analogues of a novel series of potent antibacterial LpxC inhibitors represented by hydroxamic acid.

    Organizational Affiliation

    Worldwide Medicinal Chemistry, Pfizer Global Research and Development, Eastern Point Road, Groton, Connecticut 06340, United States. matthew.f.brown@pfizer.com

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylaseA, B299Pseudomonas aeruginosaMutation(s): 1 
Gene Names: lpxCenvAPA4406
EC: 3.5.1 (PDB Primary Data), (UniProt)
Find proteins for P47205 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore P47205 
Go to UniProtKB:  P47205
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP47205
Protein Feature View
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
Query on 03I

Download Ideal Coordinates CCD File 
D [auth A],
F [auth B]
C25 H34 N2 O6 S
 Ligand Interaction
Query on ZN

Download Ideal Coordinates CCD File 
C [auth A],
E [auth B],
G [auth B]
 Ligand Interaction
Binding Affinity Annotations 
IDSourceBinding Affinity
03I BindingDB:  3U1Y IC50: 0.17 (nM) from 1 assay(s)
PDBBind:  3U1Y IC50: 2.13 (nM) from 1 assay(s)
Binding MOAD:  3U1Y IC50: 2.13 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.00 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.193 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 35.995α = 90
b = 70.396β = 90
c = 219.617γ = 90
Software Package:
Software NamePurpose

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-01-04
    Type: Initial release
  • Version 1.1: 2013-01-02
    Changes: Database references