1OYI

Solution structure of the Z-DNA binding domain of the vaccinia virus gene E3L


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 450 
  • Conformers Submitted: 20 
  • Selection Criteria: 20 structures with the lowest energy 

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This is version 1.4 of the entry. See complete history


Literature

The solution structure of the N-terminal domain of E3L shows a tyrosine conformation that may explain its reduced affinity to Z-DNA in vitro.

Kahmann, J.D.Wecking, D.A.Putter, V.Lowenhaupt, K.Kim, Y.-G.Schmieder, P.Oschkinat, H.Rich, A.Schade, M.

(2004) Proc Natl Acad Sci U S A 101: 2712-2717

  • DOI: https://doi.org/10.1073/pnas.0308612100
  • Primary Citation of Related Structures:  
    1OYI

  • PubMed Abstract: 

    The N-terminal domain of the vaccinia virus protein E3L (Z alpha(E3L)) is essential for full viral pathogenicity in mice. It has sequence similarity to the high-affinity human Z-DNA-binding domains Z alpha(ADAR1) and Z alpha(DLM1). Here, we report the solution structure of Z alpha(E3L) and the chemical shift map of its interaction surface with Z-DNA. The global structure and the Z-DNA interaction surface of Z alpha(E3L) are very similar to the high-affinity Z-DNA-binding domains Z alpha(ADAR1) and Z alpha(DLM1). However, the key Z-DNA contacting residue Y48 of Z alpha(E3L) adopts a different side chain conformation in unbound Z alpha(E3L), which requires rearrangement for binding to Z-DNA. This difference suggests a molecular basis for the significantly lower in vitro affinity of Z alpha(E3L) to Z-DNA compared with its homologues.


  • Organizational Affiliation

    Combinature Biopharm AG, Robert-Rössle-Strasse 10, D-13125 Berlin, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
double-stranded RNA-binding protein82Vaccinia virusMutation(s): 0 
Gene Names: E3L
UniProt
Find proteins for Q86638 (Vaccinia virus)
Explore Q86638 
Go to UniProtKB:  Q86638
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ86638
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 450 
  • Conformers Submitted: 20 
  • Selection Criteria: 20 structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-03-09
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2022-02-23
    Changes: Data collection, Database references, Derived calculations
  • Version 1.4: 2024-05-22
    Changes: Data collection