5LD8

GSK3011724A cocrystallised with Mycobacterium tuberculosis H37Rv KasA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.13 Å
  • R-Value Free: 0.186 
  • R-Value Work: 0.161 
  • R-Value Observed: 0.163 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.0 of the entry. See complete history


Literature

Identification of KasA as the cellular target of an anti-tubercular scaffold.

Abrahams, K.A.Chung, C.W.Ghidelli-Disse, S.Rullas, J.Rebollo-Lopez, M.J.Gurcha, S.S.Cox, J.A.Mendoza, A.Jimenez-Navarro, E.Martinez-Martinez, M.S.Neu, M.Shillings, A.Homes, P.Argyrou, A.Casanueva, R.Loman, N.J.Moynihan, P.J.Lelievre, J.Selenski, C.Axtman, M.Kremer, L.Bantscheff, M.Angulo-Barturen, I.Izquierdo, M.C.Cammack, N.C.Drewes, G.Ballell, L.Barros, D.Besra, G.S.Bates, R.H.

(2016) Nat Commun 7: 12581-12581

  • DOI: https://doi.org/10.1038/ncomms12581
  • Primary Citation of Related Structures:  
    5LD8

  • PubMed Abstract: 

    Phenotypic screens for bactericidal compounds are starting to yield promising hits against tuberculosis. In this regard, whole-genome sequencing of spontaneous resistant mutants generated against an indazole sulfonamide (GSK3011724A) identifies several specific single-nucleotide polymorphisms in the essential Mycobacterium tuberculosis β-ketoacyl synthase (kas) A gene. Here, this genomic-based target assignment is confirmed by biochemical assays, chemical proteomics and structural resolution of a KasA-GSK3011724A complex by X-ray crystallography. Finally, M. tuberculosis GSK3011724A-resistant mutants increase the in vitro minimum inhibitory concentration and the in vivo 99% effective dose in mice, establishing in vitro and in vivo target engagement. Surprisingly, the lack of target engagement of the related β-ketoacyl synthases (FabH and KasB) suggests a different mode of inhibition when compared with other Kas inhibitors of fatty acid biosynthesis in bacteria. These results clearly identify KasA as the biological target of GSK3011724A and validate this enzyme for further drug discovery efforts against tuberculosis.


  • Organizational Affiliation

    Institute of Microbiology and Infection, School of Biosciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
3-oxoacyl-[acyl-carrier-protein] synthase 1
A, B
435Mycobacterium tuberculosis H37RvMutation(s): 0 
Gene Names: kasARv2245MTCY427.26
EC: 2.3.1.41
UniProt
Find proteins for P9WQD9 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WQD9 
Go to UniProtKB:  P9WQD9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP9WQD9
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.13 Å
  • R-Value Free: 0.186 
  • R-Value Work: 0.161 
  • R-Value Observed: 0.163 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 77.338α = 90
b = 77.338β = 90
c = 147.675γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-09-21
    Type: Initial release