2CME

The crystal structure of SARS coronavirus ORF-9b protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.266 
  • R-Value Observed: 0.266 

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This is version 1.2 of the entry. See complete history


Literature

The Crystal Structure of Orf-9B, a Lipid Binding Protein from the Sars Coronavirus.

Meier, C.Aricescu, A.R.Assenberg, R.Aplin, R.T.Gilbert, R.J.C.Grimes, J.M.Stuart, D.I.

(2006) Structure 14: 1157

  • DOI: 10.1016/j.str.2006.05.012
  • Primary Citation of Related Structures:  
    2CME

  • PubMed Abstract: 
  • To achieve the greatest output from their limited genomes, viruses frequently make use of alternative open reading frames, in which translation is initiated from a start codon within an existing gene and, being out of frame, gives rise to a distinct ...

    To achieve the greatest output from their limited genomes, viruses frequently make use of alternative open reading frames, in which translation is initiated from a start codon within an existing gene and, being out of frame, gives rise to a distinct protein product. These alternative protein products are, as yet, poorly characterized structurally. Here we report the crystal structure of ORF-9b, an alternative open reading frame within the nucleocapsid (N) gene from the SARS coronavirus. The protein has a novel fold, a dimeric tent-like beta structure with an amphipathic surface, and a central hydrophobic cavity that binds lipid molecules. This cavity is likely to be involved in membrane attachment and, in mammalian cells, ORF-9b associates with intracellular vesicles, consistent with a role in the assembly of the virion. Analysis of ORF-9b and other overlapping genes suggests that they provide snapshots of the early evolution of novel protein folds.


    Organizational Affiliation

    Division of Structural Biology, The Henry Wellcome Building for Genomic Medicine, Oxford University, Roosevelt Drive, Oxford OX3 7BN, United Kingdom.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
HYPOTHETICAL PROTEIN 5A78Severe acute respiratory syndrome-related coronavirusMutation(s): 0 
Gene Names: 9b
Find proteins for P59636 (Severe acute respiratory syndrome coronavirus)
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Go to UniProtKB:  P59636
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
HYPOTHETICAL PROTEIN 5B79Severe acute respiratory syndrome-related coronavirusMutation(s): 0 
Gene Names: 9b
Find proteins for P59636 (Severe acute respiratory syndrome coronavirus)
Explore P59636 
Go to UniProtKB:  P59636
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
HYPOTHETICAL PROTEIN 5CDFH76Severe acute respiratory syndrome-related coronavirusMutation(s): 0 
Gene Names: 9b
Find proteins for P59636 (Severe acute respiratory syndrome coronavirus)
Explore P59636 
Go to UniProtKB:  P59636
Protein Feature View
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
HYPOTHETICAL PROTEIN 5EG77Severe acute respiratory syndrome-related coronavirusMutation(s): 0 
Gene Names: 9b
Find proteins for P59636 (Severe acute respiratory syndrome coronavirus)
Explore P59636 
Go to UniProtKB:  P59636
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.266 
  • R-Value Observed: 0.266 
  • Space Group: P 42
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 140.028α = 90
b = 140.028β = 90
c = 45.146γ = 90
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
SHELXphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-07-19
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance