5MI9

Structure of the phosphomimetic mutant of the elongation factor EF-Tu T62E


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Phosphorylation decelerates conformational dynamics in bacterial translation elongation factors.

Talavera, A.Hendrix, J.Versees, W.Jurenas, D.Van Nerom, K.Vandenberk, N.Singh, R.K.Konijnenberg, A.De Gieter, S.Castro-Roa, D.Barth, A.De Greve, H.Sobott, F.Hofkens, J.Zenkin, N.Loris, R.Garcia-Pino, A.

(2018) Sci Adv 4: eaap9714-eaap9714

  • DOI: 10.1126/sciadv.aap9714
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Bacterial protein synthesis is intricately connected to metabolic rate. One of the ways in which bacteria respond to environmental stress is through posttranslational modifications of translation factors. Translation elongation factor Tu (EF-Tu) is m ...

    Bacterial protein synthesis is intricately connected to metabolic rate. One of the ways in which bacteria respond to environmental stress is through posttranslational modifications of translation factors. Translation elongation factor Tu (EF-Tu) is methylated and phosphorylated in response to nutrient starvation upon entering stationary phase, and its phosphorylation is a crucial step in the pathway toward sporulation. We analyze how phosphorylation leads to inactivation of Escherichia coli EF-Tu. We provide structural and biophysical evidence that phosphorylation of EF-Tu at T382 acts as an efficient switch that turns off protein synthesis by decoupling nucleotide binding from the EF-Tu conformational cycle. Direct modifications of the EF-Tu switch I region or modifications in other regions stabilizing the β-hairpin state of switch I result in an effective allosteric trap that restricts the normal dynamics of EF-Tu and enables the evasion of the control exerted by nucleotides on G proteins. These results highlight stabilization of a phosphorylation-induced conformational trap as an essential mechanism for phosphoregulation of bacterial translation and metabolism. We propose that this mechanism may lead to the multisite phosphorylation state observed during dormancy and stationary phase.


    Organizational Affiliation

    School of Molecular and Cellular Biology, University of Leeds, Leeds LS2 9JT, UK.,Biomolecular and Analytical Mass Spectrometry Group, Department of Chemistry, University of Antwerp, Antwerp, Belgium.,Biomedical Research Institute, Hasselt University, B-3590 Hasselt, Belgium.,Cellular and Molecular Microbiology, Department of Molecular Biology, Université Libre de Bruxelles, Brussels, Belgium.,Astbury Centre for Structural Molecular Biology, University of Leeds, Leeds LS2 9JT, UK.,Structural Biology Brussels, Department of Bio-engineering Sciences, Vrije Universiteit Brussel, Brussels, Belgium.,Nano-Science Center, Department of Chemistry, University of Copenhagen, Universitetsparken 5, 2100 Copenhagen, Denmark.,Center for Structural Biology, VIB, Flanders, Belgium.,Centre for Bacterial Cell Biology, Institute for Cell and Molecular Biosciences, Newcastle University, Baddiley-Clark Building, Richardson Road, Newcastle upon Tyne NE2 4AX, UK.,Molecular Imaging and Photonics, University of Leuven, B-3001 Leuven, Belgium.,Fluorescence Applications in Biology Laboratory, Department of Chemistry and Pharmacy, Ludwig-Maximilians-Universität München, Munich, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Elongation factor Tu 1
A, B
402Escherichia coli O9:H4 (strain HS)Mutation(s): 2 
Gene Names: tuf1
Find proteins for A8A5E6 (Escherichia coli O9:H4 (strain HS))
Go to UniProtKB:  A8A5E6
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GDP
Query on GDP

Download SDF File 
Download CCD File 
A, B
GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
A, B
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.3 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.226 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 58.120α = 109.25
b = 62.100β = 106.00
c = 65.470γ = 88.15
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata scaling
XDSdata reduction
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
FNRSBelgiumMIS F.4505.16

Revision History 

  • Version 1.0: 2017-12-20
    Type: Initial release
  • Version 1.1: 2019-07-03
    Type: Data collection, Database references
  • Version 1.2: 2019-10-16
    Type: Data collection