Structure of Hydroxyethylthiazole Kinase ThiM from Staphylococcus aureus in complex with substrate analog 2-(2-methyl-1H-imidazole-1-yl)ethanol

Experimental Data Snapshot

  • Resolution: 1.62 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.183 

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Structure of ThiM from Vitamin B1 biosynthetic pathway of Staphylococcus aureus - Insights into a novel pro-drug approach addressing MRSA infections.

Drebes, J.Kunz, M.Windshugel, B.Kikhney, A.G.Muller, I.B.Eberle, R.J.Oberthur, D.Cang, H.Svergun, D.I.Perbandt, M.Betzel, C.Wrenger, C.

(2016) Sci Rep 6: 22871-22871

  • DOI: https://doi.org/10.1038/srep22871
  • Primary Citation of Related Structures:  
    5CGA, 5CGE, 5CM5, 5COJ

  • PubMed Abstract: 

    Infections caused by the methicillin-resistant Staphylococcus aureus (MRSA) are today known to be a substantial threat for global health. Emerging multi-drug resistant bacteria have created a substantial need to identify and discover new drug targets and to develop novel strategies to treat bacterial infections. A promising and so far untapped antibiotic target is the biosynthesis of vitamin B1 (thiamin). Thiamin in its activated form, thiamin pyrophosphate, is an essential co-factor for all organisms. Therefore, thiamin analogous compounds, when introduced into the vitamin B1 biosynthetic pathway and further converted into non-functional co-factors by the bacterium can function as pro-drugs which thus block various co-factor dependent pathways. We characterized one of the key enzymes within the S. aureus vitamin B1 biosynthetic pathway, 5-(hydroxyethyl)-4-methylthiazole kinase (SaThiM; EC, a potential target for pro-drug compounds and analyzed the native structure of SaThiM and complexes with the natural substrate 5-(hydroxyethyl)-4-methylthiazole (THZ) and two selected substrate analogues.

  • Organizational Affiliation

    University Hamburg, c/o DESY, Laboratory for Structural Biology of Infection and Inflammation, Hamburg, Germany.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Hydroxyethylthiazole kinase277Staphylococcus aureus subsp. aureus MRSA252Mutation(s): 0 
Gene Names: thiMSAR2181
Find proteins for Q6GEY3 (Staphylococcus aureus (strain MRSA252))
Explore Q6GEY3 
Go to UniProtKB:  Q6GEY3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6GEY3
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on 51F

Download Ideal Coordinates CCD File 
G [auth A]
I [auth B]
K [auth C]
N [auth E]
P [auth D]
G [auth A],
I [auth B],
K [auth C],
N [auth E],
P [auth D],
Q [auth D]
C6 H10 N2 O
Query on MG

Download Ideal Coordinates CCD File 
H [auth A],
J [auth B],
L [auth C],
M [auth C],
O [auth E]
Experimental Data & Validation

Experimental Data

  • Resolution: 1.62 Å
  • R-Value Free: 0.203 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.183 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 62.345α = 92.64
b = 62.483β = 92.05
c = 109.167γ = 101.46
Software Package:
Software NamePurpose
XDSdata reduction
SCALAdata scaling

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number

Revision History  (Full details and data files)

  • Version 1.0: 2016-03-23
    Type: Initial release
  • Version 1.1: 2018-03-07
    Changes: Advisory, Data collection
  • Version 1.2: 2024-05-08
    Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description