3UHM

UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase in complex with inhibitor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.26 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.181 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.2 of the entry. See complete history


Literature

Pyridone methylsulfone hydroxamate LpxC inhibitors for the treatment of serious gram-negative infections.

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

(2012) J Med Chem 55: 1662-1670

  • DOI: https://doi.org/10.1021/jm2014875
  • Primary Citation of Related Structures:  
    3UHM

  • PubMed Abstract: 

    The synthesis and biological activity of a new series of LpxC inhibitors represented by pyridone methylsulfone hydroxamate 2a is presented. Members of this series have improved solubility and free fraction when compared to compounds in the previously described biphenyl methylsulfone hydroxamate series, and they maintain superior Gram-negative antibacterial activity to comparator agents.


  • Organizational Affiliation

    Worldwide Medicinal Chemistry, Pfizer Worldwide Research and Development, 445 Eastern Point Road, Groton, Connecticut 06340, United States. [email protected]


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase299Pseudomonas aeruginosaMutation(s): 1 
Gene Names: lpxCenvAPA4406
EC: 3.5.1 (PDB Primary Data), 3.5.1.108 (UniProt)
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
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Binding Affinity Annotations 
IDSourceBinding Affinity
RFN PDBBind:  3UHM IC50: 3.6 (nM) from 1 assay(s)
BindingDB:  3UHM IC50: 3.6 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.26 Å
  • R-Value Free: 0.201 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.181 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 34.138α = 90
b = 80.965β = 95.5
c = 49.779γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-02-01
    Type: Initial release
  • Version 1.1: 2013-01-02
    Changes: Database references
  • Version 1.2: 2023-09-13
    Changes: Data collection, Database references, Derived calculations, Refinement description