7L5S

Crystal Structure of Haemophilus influenzae MtsZ at pH 5.5


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.182 
  • R-Value Work: 0.151 
  • R-Value Observed: 0.152 

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This is version 1.2 of the entry. See complete history


Literature

Active site architecture reveals coordination sphere flexibility and specificity determinants in a group of closely related molybdoenzymes.

Struwe, M.A.Kalimuthu, P.Luo, Z.Zhong, Q.Ellis, D.Yang, J.Khadanand, K.C.Harmer, J.R.Kirk, M.L.McEwan, A.G.Clement, B.Bernhardt, P.V.Kobe, B.Kappler, U.

(2021) J Biol Chem 296: 100672-100672

  • DOI: 10.1016/j.jbc.2021.100672
  • Primary Citation of Related Structures:  
    7L5S, 7L5I

  • PubMed Abstract: 
  • MtsZ is a molybdenum-containing methionine sulfoxide (MetSO) reductase that supports virulence in the human respiratory pathogen Haemophilus influenzae (Hi). HiMtsZ belongs to a group of structurally and spectroscopically uncharacterized S/N-oxide reductases, all of which are found in bacterial pathogens ...

    MtsZ is a molybdenum-containing methionine sulfoxide (MetSO) reductase that supports virulence in the human respiratory pathogen Haemophilus influenzae (Hi). HiMtsZ belongs to a group of structurally and spectroscopically uncharacterized S/N-oxide reductases, all of which are found in bacterial pathogens. Here, we have solved the crystal structure of HiMtsZ, which reveals that the HiMtsZ substrate-binding site encompasses a previously unrecognized part that accommodates the MetSO side chain via interaction with His182 and Arg166. Charge and amino acid composition of this side-chain binding region vary and, as indicated by electrochemical, kinetic and docking studies, could explain the diverse substrate specificity seen in the closely related enzymes of this type. The HiMtsZ Mo active site has an underlying structural flexibility, where dissociation of the central Ser187 ligand affected catalysis at low pH. Unexpectedly, the two main HiMtsZ electron paramagnetic resonance (EPR) species resembled not only a related DMSO reductase but also a structurally unrelated nitrate reductase that possesses an Asp-Mo ligand. This suggests that contrary to current views, the geometry of the Mo center and its primary ligands, rather than the specific amino acid environment, is the main determinant of the EPR properties of mononuclear Mo-enzymes. The flexibility in the electronic structure of the Mo centers is also apparent in two of three HiMtsZ EPR-active Mo(V) species being catalytically incompetent off-pathway forms that could not be fully oxidized.


    Organizational Affiliation

    Australian Infectious Disease Research Centre, School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, Qld, 4072, Australia. Electronic address: u.kappler@uq.edu.au.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Trimethylamine-N-oxide reductaseA813Haemophilus influenzaeMutation(s): 0 
Gene Names: torZBV064_00672
EC: 1.7.2.3
UniProt
Find proteins for A0A2S9RK57 (Haemophilus influenzae)
Explore A0A2S9RK57 
Go to UniProtKB:  A0A2S9RK57
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MGD (Subject of Investigation/LOI)
Query on MGD

Download Ideal Coordinates CCD File 
C [auth A], D [auth A]2-AMINO-5,6-DIMERCAPTO-7-METHYL-3,7,8A,9-TETRAHYDRO-8-OXA-1,3,9,10-TETRAAZA-ANTHRACEN-4-ONE GUANOSINE DINUCLEOTIDE
C20 H26 N10 O13 P2 S2
VQAGYJCYOLHZDH-ILXWUORBSA-N
 Ligand Interaction
MO (Subject of Investigation/LOI)
Query on MO

Download Ideal Coordinates CCD File 
E [auth A]MOLYBDENUM ATOM
Mo
ZOKXTWBITQBERF-UHFFFAOYSA-N
 Ligand Interaction
O (Subject of Investigation/LOI)
Query on O

Download Ideal Coordinates CCD File 
B [auth A]OXYGEN ATOM
O
XLYOFNOQVPJJNP-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.182 
  • R-Value Work: 0.151 
  • R-Value Observed: 0.152 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.47α = 90
b = 100.156β = 90
c = 132.859γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
MOLREPphasing
RESOLVEmodel building
PHENIXrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Health and Medical Research Council (NHMRC, Australia)AustraliaGNT1158451
National Health and Medical Research Council (NHMRC, Australia)Australia1180826

Revision History  (Full details and data files)

  • Version 1.0: 2021-04-21
    Type: Initial release
  • Version 1.1: 2021-05-05
    Changes: Database references
  • Version 1.2: 2021-07-21
    Changes: Database references