4Y2M

apo-GolB protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.178 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural Insights and the Surprisingly Low Mechanical Stability of the Au-S Bond in the Gold-Specific Protein GolB

Wei, W.Sun, Y.Zhu, M.Liu, X.Sun, P.Wang, F.Gui, Q.Meng, W.Cao, Y.Zhao, J.

(2015) J Am Chem Soc 137: 15358-15361

  • DOI: https://doi.org/10.1021/jacs.5b09895
  • Primary Citation of Related Structures:  
    4Y2I, 4Y2K, 4Y2M

  • PubMed Abstract: 

    The coordination bond between gold and sulfur (Au-S) has been widely studied and utilized in many fields. However, detailed investigations on the basic nature of this bond are still lacking. A gold-specific binding protein, GolB, was recently identified, providing a unique opportunity for the study of the Au-S bond at the molecular level. We probed the mechanical strength of the gold-sulfur bond in GolB using single-molecule force spectroscopy. We measured the rupture force of the Au-S bond to be 165 pN, much lower than Au-S bonds measured on different gold surfaces (∼1000 pN). We further solved the structures of apo-GolB and Au(I)-GolB complex using X-ray crystallography. These structures showed that the average Au-S bond length in GolB is much longer than the reported average value of Au-S bonds. Our results highlight the dramatic influence of the unique biological environment on the stability and strength of metal coordination bonds in proteins.


  • Organizational Affiliation

    Elias James Corey Institute of Biomedical Research, Wuxi Biortus Biosciences Co., Ltd , Jiangyin, 214437, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Putative metal-binding transport protein65Salmonella enterica subsp. enterica serovar TyphimuriumMutation(s): 0 
Gene Names: STMDT2_03511
UniProt
Find proteins for A0A140UHB4 (Salmonella typhimurium)
Explore A0A140UHB4 
Go to UniProtKB:  A0A140UHB4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A140UHB4
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
AU
Query on AU

Download Ideal Coordinates CCD File 
B [auth A]GOLD ION
Au
ZBKIUFWVEIBQRT-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.40 Å
  • R-Value Free: 0.198 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.178 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 36.993α = 90
b = 36.993β = 90
c = 169.761γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-02-10
    Type: Initial release