6FTB

Staphylococcus aureus monofunctional glycosyltransferase in complex with moenomycin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.197 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The role of the jaw subdomain of peptidoglycan glycosyltransferases for lipid II polymerization.

Punekar, A.S.Samsudin, F.Lloyd, A.J.Dowson, C.G.Scott, D.J.Khalid, S.Roper, D.I.

(2018) Cell Surf 2: 54-66

  • DOI: 10.1016/j.tcsw.2018.06.002

  • PubMed Abstract: 
  • Bacterial peptidoglycan glycosyltransferases (PGT) catalyse the essential polymerization of lipid II into linear glycan chains required for peptidoglycan biosynthesis. The PGT domain is composed of a large head subdomain and a smaller jaw subdomain a ...

    Bacterial peptidoglycan glycosyltransferases (PGT) catalyse the essential polymerization of lipid II into linear glycan chains required for peptidoglycan biosynthesis. The PGT domain is composed of a large head subdomain and a smaller jaw subdomain and can be potently inhibited by the antibiotic moenomycin A (MoeA). We present an X-ray structure of the MoeA-bound Staphylococcus aureus monofunctional PGT enzyme, revealing electron density for a second MoeA bound to the jaw subdomain as well as the PGT donor site. Isothermal titration calorimetry confirms two drug-binding sites with markedly different affinities and positive cooperativity. Hydrophobic cluster analysis suggests that the membrane-interacting surface of the jaw subdomain has structural and physicochemical properties similar to amphipathic cationic α -helical antimicrobial peptides for lipid II recognition and binding. Furthermore, molecular dynamics simulations of the drug-free and -bound forms of the enzyme demonstrate the importance of the jaw subdomain movement for lipid II selection and polymerization process and provide molecular-level insights into the mechanism of peptidoglycan biosynthesis by PGTs.


    Related Citations: 
    • Characterization of the active site of S. aureus monofunctional glycosyltransferase (Mtg) by site-directed mutation and structural analysis of the protein complexed with moenomycin.
      Heaslet, H.,Shaw, B.,Mistry, A.,Miller, A.A.
      (2009) J Struct Biol. 167: 129


    Organizational Affiliation

    School of Chemistry, University of Southampton, Southampton SO17 1BJ, United Kingdom.,School of Biosciences, University of Nottingham, Sutton Bonington Campus, Leicestershire LE12 5RD, United Kingdom.,School of Life Sciences, University of Warwick, Coventry CV4 7AL, United Kingdom.,ISIS Neutron and Muon Spallation Source and Research Complex at Harwell, Rutherford Appleton Laboratory, Oxfordshire, United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Monofunctional glycosyltransferase
A
210Staphylococcus aureus (strain MW2)Mutation(s): 0 
Gene Names: mgt
EC: 2.4.1.129
Find proteins for Q7A0I6 (Staphylococcus aureus (strain MW2))
Go to UniProtKB:  Q7A0I6
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
1QW
Query on 1QW

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Download CCD File 
A
(2R)-2,3-dihydroxypropyl dodecanoate
1-Lauroyl-rac-glycerol
C15 H30 O4
ARIWANIATODDMH-CQSZACIVSA-N
 Ligand Interaction
PO4
Query on PO4

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Download CCD File 
A
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
EDO
Query on EDO

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Download CCD File 
A
1,2-ETHANEDIOL
ETHYLENE GLYCOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
M0E
Query on M0E

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Download CCD File 
A
MOENOMYCIN
MOENOMYCIN
C69 H106 N5 O34 P
NXPRJQIAIORCGO-ZLPAOQQDSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.237 
  • R-Value Work: 0.197 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 114.422α = 90.00
b = 114.422β = 90.00
c = 128.844γ = 120.00
Software Package:
Software NamePurpose
PHASERphasing
BUSTERrefinement
HKL-2000data scaling
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-06-27
    Type: Initial release
  • Version 1.1: 2018-08-08
    Type: Data collection, Database references