1CR6

CRYSTAL STRUCTURE OF MURINE SOLUBLE EPOXIDE HYDROLASE COMPLEXED WITH CPU INHIBITOR


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.252 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Detoxification of environmental mutagens and carcinogens: structure, mechanism, and evolution of liver epoxide hydrolase.

Argiriadi, M.A.Morisseau, C.Hammock, B.D.Christianson, D.W.

(1999) Proc Natl Acad Sci U S A 96: 10637-10642

  • DOI: 10.1073/pnas.96.19.10637
  • Primary Citation of Related Structures:  
    1CR6, 1CQZ

  • PubMed Abstract: 
  • The crystal structure of recombinant murine liver cytosolic epoxide hydrolase (EC 3.3.2.3) has been determined at 2.8-A resolution. The binding of a nanomolar affinity inhibitor confirms the active site location in the C-terminal domain; this domain ...

    The crystal structure of recombinant murine liver cytosolic epoxide hydrolase (EC 3.3.2.3) has been determined at 2.8-A resolution. The binding of a nanomolar affinity inhibitor confirms the active site location in the C-terminal domain; this domain is similar to that of haloalkane dehalogenase and shares the alpha/beta hydrolase fold. A structure-based mechanism is proposed that illuminates the unique chemical strategy for the activation of endogenous and man-made epoxide substrates for hydrolysis and detoxification. Surprisingly, a vestigial active site is found in the N-terminal domain similar to that of another enzyme of halocarbon metabolism, haloacid dehalogenase. Although the vestigial active site does not participate in epoxide hydrolysis, the vestigial domain plays a critical structural role by stabilizing the dimer in a distinctive domain-swapped architecture. Given the genetic and structural relationships among these enzymes of xenobiotic metabolism, a structure-based evolutionary sequence is postulated.


    Related Citations: 
    • Potent urea and carbamate inhibitors of soluble epoxide hydrolases
      Morisseau, C., Goodrow, M., Dowdy, D., Zheng, J., Greene, J., Sanborn, J.R., Hammock, B.D.
      (1999) Proc Natl Acad Sci U S A 96: 8849

    Organizational Affiliation

    Roy and Diana Vagelos Laboratories, Department of Chemistry, University of Pennsylvania, Philadelphia, PA 19104-6323, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
EPOXIDE HYDROLASEAB554Mus musculusMutation(s): 0 
Gene Names: Ephx2Eph2
EC: 3.3.2.3 (PDB Primary Data), 3.3.2.10 (UniProt), 3.1.3.76 (UniProt)
Find proteins for P34914 (Mus musculus)
Explore P34914 
Go to UniProtKB:  P34914
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CPU
Query on CPU

Download CCD File 
A, B
N-CYCLOHEXYL-N'-(PROPYL)PHENYL UREA
C16 H24 N2 O
HBTZVNKXMFGOOJ-UHFFFAOYSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
CPUKi :  3.0999999046325684   nM  PDBBind
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.312 
  • R-Value Work: 0.201 
  • R-Value Observed: 0.252 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 151.9α = 90
b = 143β = 90
c = 60γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1999-11-19
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance