4V12

Crystal structure of the MSMEG_6754 dehydratase from Mycobacterium smegmatis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.178 
  • R-Value Work: 0.159 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

A New Dehydratase Conferring Innate Resistance to Thiacetazone and Intra-Amoebal Survival of Mycobacterium Smegmatis.

Carrere-Kremer, S.Blaise, M.Singh, V.K.Alibaud, L.Tuaillon, E.Halloum, I.Van De Weerd, R.Guerardel, Y.Drancourt, M.Takiff, H.Geurtsen, J.Kremer, L.

(2015) Mol.Microbiol. 96: 1085

  • DOI: 10.1111/mmi.12992

  • PubMed Abstract: 
  • Nontuberculous mycobacteria are innately resistant to most antibiotics, although the mechanisms responsible for their drug resistance remain poorly understood. They are particularly refractory to thiacetazone (TAC), a second-line antitubercular drug. ...

    Nontuberculous mycobacteria are innately resistant to most antibiotics, although the mechanisms responsible for their drug resistance remain poorly understood. They are particularly refractory to thiacetazone (TAC), a second-line antitubercular drug. Herein, we identified MSMEG_6754 as essential for the innate resistance of Mycobacterium smegmatis to TAC. Transposon-mediated and targeted disruption of MSMEG_6754 resulted in hypersusceptibility to TAC. Conversely, introduction of MSMEG_6754 into Mycobacterium tuberculosis increased resistance 100-fold. Resolution of the crystal structure of MSMEG_6754 revealed a homodimer in which each monomer comprises two hot-dog domains characteristic of dehydratase-like proteins and very similar to the HadAB complex involved in mycolic acid biosynthesis. Gene inactivation of the essential hadB dehydratase could be achieved in M. smegmatis and M. tuberculosis only when the strains carried an integrated copy of MSMEG_6754, supporting the idea that MSMEG_6754 and HadB share redundant dehydratase activity. Using M. smegmatis-Acanthamoeba co-cultures, we found that intra-amoebal growth of the MSMEG_6754 deleted strain was significantly reduced compared with the parental strain. This in vivo growth defect was fully restored upon complementation with catalytically active MSMEG_6754 or HadABC, indicating that MSMEG_6754 plays a critical role in the survival of M. smegmatis within the environmental host.


    Organizational Affiliation

    Department of Medical Microbiology and Infection Control, VU University Medical Center, Amsterdam, 1081 BT, The Netherlands.,CARB Centre, Department of Molecular Biology and Genetics, Aarhus University, Gustav Wieds Vej 10c, DK-8000 Aarhus C, Denmark.,INSERM, DIMNP, Place Eugène Bataillon, 34095 Montpellier Cedex 05, France.,Unité de Glycobiologie Structurale et Fonctionnelle, CNRS UMR 8576, IFR 147, Université des Sciences et Technologies de Lille, 59655 Villeneuve d'Ascq cedex, France.,INSERM U1058, Université de Montpellier and Department of Bacteriology-Virology, CHU de Montpellier, Montpellier, 34095, France.,Laboratorio de Genética Molecular, CMBC, IVIC, Caracas, 1020A, Venezuela.,Laboratoire de Dynamique des Interactions Membranaires Normales et Pathologiques, CNRS UMR 5235, Université de Montpellier, case 107, Place Eugène Bataillon, 34095 Montpellier Cedex 05, France.,URMITE, UMR63, CNRS 7278, IRD 198, INSERM 1095, Université Aix-Marseille, Marseille, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
MAOC LIKE DOMAIN PROTEIN
A
343Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)Mutation(s): 0 
Find proteins for A0R724 (Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155))
Go to UniProtKB:  A0R724
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
POG
Query on POG

Download SDF File 
Download CCD File 
A
(20S)-2,5,8,11,14,17-HEXAMETHYL-3,6,9,12,15,18-HEXAOXAHENICOSANE-1,20-DIOL
POLYPROPYLENE GLYCOL, HEPTAPROPYLENE GLYCOL
C21 H44 O8
OWRNLGZKEZSHGO-QAWAPDBNSA-N
 Ligand Interaction
BTB
Query on BTB

Download SDF File 
Download CCD File 
A
2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
BIS-TRIS BUFFER
C8 H19 N O5
OWMVSZAMULFTJU-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.5 Å
  • R-Value Free: 0.178 
  • R-Value Work: 0.159 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 84.390α = 90.00
b = 84.390β = 90.00
c = 122.130γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2014-09-23 
  • Released Date: 2015-03-18 
  • Deposition Author(s): Blaise, M.

Revision History 

  • Version 1.0: 2015-03-18
    Type: Initial release
  • Version 1.1: 2015-03-25
    Type: Database references
  • Version 1.2: 2015-06-10
    Type: Database references
  • Version 1.3: 2017-07-12
    Type: Refinement description