4HEI

2A X-RAY STRUCTURE OF HPF from VIBRIO CHOLERAE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.60 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.262 
  • R-Value Observed: 0.262 

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This is version 1.5 of the entry. See complete history


Literature

Structure of Vibrio cholerae ribosome hibernation promoting factor.

De Bari, H.Berry, E.A.

(2013) Acta Crystallogr Sect F Struct Biol Cryst Commun 69: 228-236

  • DOI: 10.1107/S1744309113000961
  • Primary Citation of Related Structures:  
    4HEI

  • PubMed Abstract: 
  • The X-ray crystal structure of ribosome hibernation promoting factor (HPF) from Vibrio cholerae is presented at 2.0 Å resolution. The crystal was phased by two-wavelength MAD using cocrystallized cobalt. The asymmetric unit contained two molecules of HPF linked by four Co atoms ...

    The X-ray crystal structure of ribosome hibernation promoting factor (HPF) from Vibrio cholerae is presented at 2.0 Å resolution. The crystal was phased by two-wavelength MAD using cocrystallized cobalt. The asymmetric unit contained two molecules of HPF linked by four Co atoms. The metal-binding sites observed in the crystal are probably not related to biological function. The structure of HPF has a typical β-α-β-β-β-α fold consistent with previous structures of YfiA and HPF from Escherichia coli. Comparison of the new structure with that of HPF from E. coli bound to the Thermus thermophilus ribosome [Polikanov et al. (2012), Science, 336, 915-918] shows that no significant structural changes are induced in HPF by binding.


    Organizational Affiliation

    Biochemistry and Molecular Biology, SUNY Upstate Medical University, 750 E. Adams Avenue, Syracuse, NY 13210, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RIBOSOME HIBERNATION PROTEIN YHBHA, B95Vibrio cholerae O1 biovar El Tor str. N16961Mutation(s): 0 
Gene Names: VC_2530
UniProt
Find proteins for H9L4N9 (Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961))
Explore H9L4N9 
Go to UniProtKB:  H9L4N9
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.60 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.262 
  • R-Value Observed: 0.262 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.354α = 90
b = 46.354β = 90
c = 174.492γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PHENIXmodel building
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
PHENIXphasing

Structure Validation

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Entry History 

Deposition Data

  • Deposited Date: 2012-10-03 
  • Released Date: 2012-10-24 
  • Deposition Author(s): De Bari, H., Berry, E.A.
  • This entry supersedes: 4FYL

Revision History  (Full details and data files)

  • Version 1.0: 2012-10-24
    Type: Initial release
  • Version 1.1: 2012-12-12
    Changes: Derived calculations
  • Version 1.2: 2013-03-06
    Changes: Database references, Derived calculations, Other
  • Version 1.3: 2013-05-22
    Changes: Database references
  • Version 1.4: 2017-06-21
    Changes: Database references, Source and taxonomy
  • Version 1.5: 2019-11-20
    Changes: Derived calculations