6K2H

structural characterization of mutated NreA protein in nitrate binding site from staphylococcus aureus.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.175 
  • R-Value Observed: 0.178 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural insights into the conformational change of Staphylococcus aureus NreA at C-terminus.

Sangare, L.Chen, W.Wang, C.Chen, X.Wu, M.Zhang, X.Zang, J.

(2020) Biotechnol Lett 42: 787-795

  • DOI: https://doi.org/10.1007/s10529-020-02807-2
  • Primary Citation of Related Structures:  
    6IZJ, 6K2H

  • PubMed Abstract: 

    Staphylococcus aureus is an anaerobic facultative microorganism that features the NreABC system for nitrate respiration. NreB is the sensor histidine kinase that phosphorylates the response regulator NreC to stimulate the expression of target genes. NreA is a nitrate sensor which dissociates from NreB in the present of nitrate and relieves its inhibition on NreB. However, the molecular basis of how NreA regulate NreB remains unknown. In this study, we determined the crystal structures of nitrate-bound NreA from S. aureus (SaNreA/NO 3 - ) and its apoNreA-like mutant SaNreAY 94A in complex with ethanediol (SaNreA Y94A /EDO). Structural comparison reveals that the C-terminal loop in SaNreA/NO 3 - rearranges to an α-helix (α7) in SaNreA Y94A /EDO, which converts an acidic pocket on the surface to a positively charged region. This conformational change of SaNreA C-terminus might play a role in SaNreB binding.


  • Organizational Affiliation

    Hefei National Laboratory for Physical Sciences at Microscale, CAS Center for Excellence in Biomacromolecules, Collaborative Innovation Center of Chemistry for Life Sciences, and School of Life Sciences, University of Science and Technology of China, 96 Jinzhai Road, Hefei, 230026, Anhui, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NreA150Staphylococcus aureusMutation(s): 1 
Gene Names: QU38_07700
UniProt
Find proteins for Q2FVM5 (Staphylococcus aureus (strain NCTC 8325 / PS 47))
Explore Q2FVM5 
Go to UniProtKB:  Q2FVM5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2FVM5
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.175 
  • R-Value Observed: 0.178 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 35α = 90
b = 106.302β = 90
c = 33.726γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-03-11
    Type: Initial release
  • Version 1.1: 2020-04-15
    Changes: Database references
  • Version 1.2: 2023-11-22
    Changes: Data collection, Database references, Refinement description