7QC8

HisF-C9A-D11E-V33A_L50H_I52H mutant in complex with Zn(II) from T. maritima


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.159 
  • R-Value Work: 0.138 
  • R-Value Observed: 0.139 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

An artificial metalloprotein with metal-adaptive coordination sites and Ni-dependent quercetinase activity.

Beaumet, M.Dose, A.Brauer, A.Mahy, J.P.Ghattas, W.Groll, M.Hess, C.R.

(2022) J Inorg Biochem 235: 111914-111914

  • DOI: https://doi.org/10.1016/j.jinorgbio.2022.111914
  • Primary Citation of Related Structures:  
    7QC3, 7QC6, 7QC7, 7QC8, 7QC9

  • PubMed Abstract: 

    Engineering non-native metal active sites into proteins using canonical amino acids offers many advantages but is hampered by significant challenges. The TIM barrel protein, imidazole glycerol phosphate synthase from the hyperthermophilic organism Thermotoga maritima (tHisF), is well-suited for the construction of artificial metalloenzymes by this approach. To this end, we have generated a tHisF variant (tHisF EHH ) with a Glu/His/His motif for metal ion coordination. Crystal structures of Zn II :tHisF EHH and Ni II :tHisF EHH reveal that both metal ions bind to the engineered histidines. However, the two metals bind at distinct sites with different geometries, demonstrating the adaptability of tHisF. Only Zn II additionally ligates the Glu residue and adopts a tetrahedral geometry. The pseudo-octahedral Ni II site comprises the two His and a native Ser residue. Ni II :tHisF EHH catalyzes the oxidative cleavage of the flavanols quercetin and myricetin, providing an unprecedented example of an artificial metalloprotein with quercetinase activity.


  • Organizational Affiliation

    Institut de Chimie Moléculaire et des Matériaux d'Orsay, Université Paris-Saclay, CNRS, 91405 Orsay, France.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Imidazole glycerol phosphate synthase subunit HisF253Thermotoga maritima MSB8Mutation(s): 5 
Gene Names: hisFTM_1036
EC: 4.3.2.10
UniProt
Find proteins for Q9X0C6 (Thermotoga maritima (strain ATCC 43589 / DSM 3109 / JCM 10099 / NBRC 100826 / MSB8))
Explore Q9X0C6 
Go to UniProtKB:  Q9X0C6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9X0C6
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.159 
  • R-Value Work: 0.138 
  • R-Value Observed: 0.139 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 96.68α = 90
b = 96.68β = 90
c = 154.42γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
XSCALEdata scaling
REFMACphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Communitys Seventh Framework ProgrammeEuropean Union283570

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-10
    Type: Initial release
  • Version 1.1: 2024-01-31
    Changes: Data collection, Refinement description