2I39

Crystal structure of Vaccinia virus N1L protein

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.202 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


Literature

Vaccinia virus N1L protein resembles a B cell lymphoma-2 (Bcl-2) family protein.

Aoyagi, M., Zhai, D., Jin, C., Aleshin, A.E., Stec, B., Reed, J.C., Liddington, R.C.

(2007) Protein Sci 16: 118-124

  • DOI: https://doi.org/10.1110/ps.062454707
  • Primary Citation of Related Structures:  
    2I39

  • PubMed Abstract: 

    Poxviruses encode immuno-modulatory proteins capable of subverting host defenses. The poxvirus vaccinia expresses a small 14-kDa protein, N1L, that is critical for virulence. We report the crystal structure of N1L, which reveals an unexpected but striking resemblance to host apoptotic regulators of the B cell lymphoma-2 (Bcl-2) family. Although N1L lacks detectable Bcl-2 homology (BH) motifs at the sequence level, we show that N1L binds with high affinity to the BH3 peptides of pro-apoptotic Bcl-2 family proteins in vitro, consistent with a role for N1L in modulating host antiviral defenses.

    • Organizational Affiliation: 

    Burnham Institute for Medical Research, La Jolla, CA 92037, USA.


Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Protein N1
A, B, C, D, E
A, B, C, D, E, F
137Vaccinia virusMutation(s): 0 
Gene Names: N1L (VACWR028)
UniProt
Find proteins for Q49PX0 (Vaccinia virus)
Explore Q49PX0 
Go to UniProtKB:  Q49PX0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ49PX0
Sequence Annotations
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  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.202 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 68.64α = 90
b = 109.99β = 110.92
c = 69.58γ = 90
Software Package:
Software NamePurpose
CNSrefinement
Blu-Icedata collection
HKL-2000data reduction
HKL-2000data scaling
SHELXDphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2006-11-21
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-02-21
    Changes: Data collection, Database references, Derived calculations