Structure of Leukotriene A4 hydrolase from Xenopus laevis complexed with inhibitor bestatin

Experimental Data Snapshot

  • Resolution: 2.26 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.222 
  • R-Value Observed: 0.223 

wwPDB Validation   3D Report Full Report

Ligand Structure Quality Assessment 

This is version 1.2 of the entry. See complete history


Product formation controlled by substrate dynamics in leukotriene A4 hydrolase.

Stsiapanava, A.Tholander, F.Kumar, R.B.Qureshi, A.A.Niegowski, D.Hasan, M.Thunnissen, M.Haeggstrom, J.Z.Rinaldo-Matthis, A.

(2014) Biochim Biophys Acta 1844: 439-446

  • DOI: https://doi.org/10.1016/j.bbapap.2013.12.003
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Leukotriene A4 hydrolase/aminopeptidase (LTA4H) (EC is a bifunctional zinc metalloenzyme with both an epoxide hydrolase and an aminopeptidase activity. LTA4H from the African claw toad, Xenopus laevis (xlLTA4H) has been shown to, unlike the human enzyme, convert LTA4 to two enzymatic metabolites, LTB4 and another biologically active product Δ(6)-trans-Δ(8)-cis-LTB4 (5(S),12R-dihydroxy-6,10-trans-8,14-cis-eicosatetraenoic acid). In order to study the molecular aspect of the formation of this product we have characterized the structure and function of xlLTA4H. We solved the structure of xlLTA4H to a resolution of 2.3Å. It is a dimeric structure where each monomer has three domains with the active site in between the domains, similar as to the human structure. An important difference between the human and amphibian enzyme is the phenylalanine to tyrosine exchange at position 375. Our studies show that mutating F375 in xlLTA4H to tyrosine abolishes the formation of the LTB4 isomeric product Δ(6)-trans-Δ(8)-cis-LTB4. In an attempt to understand how one amino acid exchange leads to a new product profile as seen in the xlLTA4H, we performed a conformer analysis of the triene part of the substrate LTA4. Our results show that the Boltzmann distribution of substrate conformers correlates with the observed distribution of products. We suggest that the observed difference in product profile between the human and the xlLTA4H arises from different level of discrimination between substrate LTA4 conformers.

  • Organizational Affiliation

    Department of Medical Biochemistry and Biophysics, Scheeles väg 2, Karolinska Institutet, 17177 Stockholm, Sweden. Electronic address: alena.stsiapanava@ki.se.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
MGC78867 protein
A, B
609Xenopus laevisMutation(s): 0 
Gene Names: lta4hMGC78867
Find proteins for Q6IP81 (Xenopus laevis)
Explore Q6IP81 
Go to UniProtKB:  Q6IP81
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6IP81
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.26 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.222 
  • R-Value Observed: 0.223 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 222.12α = 90
b = 52.17β = 111.58
c = 109.9γ = 90
Software Package:
Software NamePurpose
ADSCdata collection
PROCESSdata reduction
PROCESSdata scaling

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-06-12
    Type: Initial release
  • Version 1.1: 2014-02-12
    Changes: Database references
  • Version 1.2: 2024-02-28
    Changes: Data collection, Database references, Derived calculations