3CHR

Crystal structure of leukotriene A4 hydrolase in complex with 4-amino-N-[4-(phenylmethoxy)phenyl]-butanamide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.207 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Synthesis of glutamic acid analogs as potent inhibitors of leukotriene A4 hydrolase.

Kirkland, T.A.Adler, M.Bauman, J.G.Chen, M.Haeggstrom, J.Z.King, B.Kochanny, M.J.Liang, A.M.Mendoza, L.Phillips, G.B.Thunnissen, M.Trinh, L.Whitlow, M.Ye, B.Ye, H.Parkinson, J.Guilford, W.J.

(2008) Bioorg.Med.Chem. 16: 4963-4983

  • DOI: 10.1016/j.bmc.2008.03.042
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Leukotriene B(4) (LTB(4)) is a potent pro-inflammatory mediator that has been implicated in the pathogenesis of multiple diseases, including psoriasis, inflammatory bowel disease, multiple sclerosis and asthma. As a method to decrease the level of LT ...

    Leukotriene B(4) (LTB(4)) is a potent pro-inflammatory mediator that has been implicated in the pathogenesis of multiple diseases, including psoriasis, inflammatory bowel disease, multiple sclerosis and asthma. As a method to decrease the level of LTB(4) and possibly identify novel treatments, inhibitors of the LTB(4) biosynthetic enzyme, leukotriene A(4) hydrolase (LTA(4)-h), have been explored. Here we describe the discovery of a potent inhibitor of LTA(4)-h, arylamide of glutamic acid 4f, starting from the corresponding glycinamide 2. Analogs of 4f are then described, focusing on compounds that are both active and stable in whole blood. This effort culminated in the identification of amino alcohol 12a and amino ester 6b which meet these criteria.


    Related Citations: 
    • Leukotriene A4 Hydrolase: Identification of a Common Carboxylate Recognition Site for the Epoxide Hydrolase and Aminopeptidase Substrates
      Rudberg, P.C.,Tholander, F.O.T.,Andberg, M.,Thunnissen, M.M.G.M.,Haeggstrom, J.Z.
      (2004) J.Mol.Biol. 279: 27376
    • Crystal structures of LEUKOTRIENE A4 HYDROLASE in complex with captopril and two competitive tight-binding inhibitors.
      Thunnissen, M.M.G.M.,Anderson, B.,Samuelsson, B.,Wong, C.-H.,Haeggstrom, J.Z.
      (2002) FASEB J. 16: 1648
    • Leukotriene A4 Hydrolase: Selective Abrogation of Leukotriene B4 Formation by Mutation of Aspartic Acid 375.
      Rudberg, P.C.,Tholander, F.,Thunnissen, M.M.,Samuelsson, B.,Haeggstrom, J.Z.
      (2002) Proc.Natl.Acad.Sci.USA 99: 4215
    • Crystal Structure of Human Leukotriene A4 Hydrolase, a Bifunctional Enzyme in Inflammation
      Thunnissen, M.M.G.M.,Nordlund, P.N.,Haeggstrom, J.Z.
      (2001) Nat.Struct.Mol.Biol. 8: 131


    Organizational Affiliation

    Department of Medicinal Chemistry, Berlex Biosciences, 2600 Hilltop Drive, Richmond, CA 94804, United States. Thomas.kirkland@promega.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Leukotriene A-4 hydrolase
A
610Homo sapiensMutation(s): 0 
Gene Names: LTA4H (LTA4)
EC: 3.3.2.6
Find proteins for P09960 (Homo sapiens)
Go to Gene View: LTA4H
Go to UniProtKB:  P09960
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
YB
Query on YB

Download SDF File 
Download CCD File 
A
YTTERBIUM (III) ION
Yb
AWSFICBXMUKWSK-UHFFFAOYSA-N
 Ligand Interaction
4BS
Query on 4BS

Download SDF File 
Download CCD File 
A
4-amino-N-[4-(benzyloxy)phenyl]butanamide
C17 H20 N2 O2
QTWBKNVNGVYTNZ-UHFFFAOYSA-N
 Ligand Interaction
IMD
Query on IMD

Download SDF File 
Download CCD File 
A
IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
4BSIC50: 61 nM (100) BINDINGDB
4BSIC50: 61 nM BINDINGMOAD
4BSIC50: 61 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.207 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 67.346α = 90.00
b = 133.210β = 90.00
c = 83.100γ = 90.00
Software Package:
Software NamePurpose
CNXrefinement
SCALAdata scaling
MAR345dtbdata collection
REFMACrefinement
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-04-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2018-03-07
    Type: Data collection