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