5GPE

Crystal structure of the transcription regulator PbrR691 from Ralstonia metallidurans CH34 in complex with Lead(II)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.178 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural Basis for the Selective Pb(II) Recognition of Metalloregulatory Protein PbrR691

Huang, S.Q.Liu, X.C.Wang, D.Chen, W.Z.Hu, Q.Y.Wei, T.B.Zhou, W.Q.Gan, J.H.Chen, H.

(2016) Inorg Chem 55: 12516-12519

  • DOI: https://doi.org/10.1021/acs.inorgchem.6b02397
  • Primary Citation of Related Structures:  
    5GPE

  • PubMed Abstract: 

    The transcription regulator PbrR691, one of the MerR family proteins, shows extremely high sensitivity and selectivity toward Pb(II) in Ralstonia metallidurans CH34. Here, we present the crystal structure of PbrR691 in complex with Pb(II) at 2.0 Å resolution. The Pb(II) coordinates with three conserved cysteines and adopts a unique trigonal-pyramidal (hemidirected) geometry. To our knowledge, the PbrR691-Pb(II) structure provides the first three-dimensional visualization of a functional hemidirected lead(II) thiolate coordinate geometry in a protein.


  • Organizational Affiliation

    School of Life Sciences, Fudan University , Shanghai 200433, P. R. China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transcriptional regulator, MerR-family
A, B, C, D, E
A, B, C, D, E, F, G, H
129Cupriavidus metallidurans CH34Mutation(s): 0 
Gene Names: pbrR2Rmet_2302
UniProt
Find proteins for Q1LKZ5 (Cupriavidus metallidurans (strain ATCC 43123 / DSM 2839 / NBRC 102507 / CH34))
Explore Q1LKZ5 
Go to UniProtKB:  Q1LKZ5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ1LKZ5
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.177 
  • R-Value Observed: 0.178 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.938α = 109.33
b = 67.903β = 89.82
c = 89.723γ = 90.32
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (NSF, China)China--

Revision History  (Full details and data files)

  • Version 1.0: 2016-12-28
    Type: Initial release
  • Version 1.1: 2017-08-16
    Changes: Structure summary
  • Version 1.2: 2021-09-15
    Changes: Author supporting evidence, Database references
  • Version 1.3: 2023-11-08
    Changes: Data collection, Refinement description