5IP6

Structure of Transcriptional Regulatory Repressor Protein - EthR from Mycobacterium Tuberculosis in complex with N-((tetrahydrofuran-3-yl)methyl)pyrrolidine-1-carboxamide at 1.93A resolution


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.213 
  • R-Value Observed: 0.214 

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This is version 1.2 of the entry. See complete history


Literature

Fragment-Sized EthR Inhibitors Exhibit Exceptionally Strong Ethionamide Boosting Effect in Whole-Cell Mycobacterium tuberculosis Assays.

Nikiforov, P.O.Blaszczyk, M.Surade, S.Boshoff, H.I.Sajid, A.Delorme, V.Deboosere, N.Brodin, P.Baulard, A.R.Barry, C.E.Blundell, T.L.Abell, C.

(2017) ACS Chem Biol 12: 1390-1396

  • DOI: 10.1021/acschembio.7b00091
  • Primary Citation of Related Structures:  
    5J3L, 5IP6, 5IOZ, 5IOY, 5J1U, 5J1Y, 5J1R, 5IPA

  • PubMed Abstract: 
  • Small-molecule inhibitors of the mycobacterial transcriptional repressor EthR have previously been shown to act as boosters of the second-line antituberculosis drug ethionamide. Fragment-based drug discovery approaches have been used in the past to make highly potent EthR inhibitors with ethionamide boosting activity both in vitro and ex vivo ...

    Small-molecule inhibitors of the mycobacterial transcriptional repressor EthR have previously been shown to act as boosters of the second-line antituberculosis drug ethionamide. Fragment-based drug discovery approaches have been used in the past to make highly potent EthR inhibitors with ethionamide boosting activity both in vitro and ex vivo. Herein, we report the development of fragment-sized EthR ligands with nanomolar minimum effective concentration values for boosting the ethionamide activity in Mycobacterium tuberculosis whole-cell assays.


    Organizational Affiliation

    Department of Chemistry, University of Cambridge , Lensfield Road, Cambridge CB2 1EW, U.K.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TetR-family transcriptional regulatory repressor proteinA216Mycobacterium tuberculosis H37RaMutation(s): 0 
Gene Names: ethRMRA_3895
UniProt
Find proteins for A5U9I4 (Mycobacterium tuberculosis (strain ATCC 25177 / H37Ra))
Explore A5U9I4 
Go to UniProtKB:  A5U9I4
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
6C9 (Subject of Investigation/LOI)
Query on 6C9

Download Ideal Coordinates CCD File 
B [auth A]N-{[(3S)-oxolan-3-yl]methyl}pyrrolidine-1-carboxamide
C10 H18 N2 O2
MDOWUCLFMQLBNB-VIFPVBQESA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.238 
  • R-Value Work: 0.213 
  • R-Value Observed: 0.214 
  • Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 120.81α = 90
b = 120.81β = 90
c = 33.736γ = 90
Software Package:
Software NamePurpose
Aimlessdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
xia2data reduction

Structure Validation

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Ligand Structure Quality Assessment  



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Engineering and Physical Sciences Research CouncilUnited Kingdom--
Bill & Melinda Gates FoundationUnited States--
European Union--

Revision History  (Full details and data files)

  • Version 1.0: 2017-03-29
    Type: Initial release
  • Version 1.1: 2017-05-31
    Changes: Database references
  • Version 1.2: 2017-09-13
    Changes: Author supporting evidence