4CQN

Crystal structure of the E.coli LeuRS-tRNA complex with the non- cognate isoleucyl adenylate analogue


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.214 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The Physiological Target for Leurs Translational Quality Control is Norvaline

Cvetesic, N.Palencia, A.Halasz, I.Cusack, S.Gruic-Sovulj, I.

(2014) Embo J. 33: 1639

  • DOI: 10.15252/embj.201488199

  • PubMed Abstract: 
  • The fidelity of protein synthesis depends on the capacity of aminoacyl-tRNA synthetases (AARSs) to couple only cognate amino acid-tRNA pairs. If amino acid selectivity is compromised, fidelity can be ensured by an inherent AARS editing activity that ...

    The fidelity of protein synthesis depends on the capacity of aminoacyl-tRNA synthetases (AARSs) to couple only cognate amino acid-tRNA pairs. If amino acid selectivity is compromised, fidelity can be ensured by an inherent AARS editing activity that hydrolyses mischarged tRNAs. Here, we show that the editing activity of Escherichia coli leucyl-tRNA synthetase (EcLeuRS) is not required to prevent incorrect isoleucine incorporation. Rather, as shown by kinetic, structural and in vivo approaches, the prime biological function of LeuRS editing is to prevent mis-incorporation of the non-standard amino acid norvaline. This conclusion follows from a reassessment of the discriminatory power of LeuRS against isoleucine and the demonstration that a LeuRS editing-deficient E. coli strain grows normally in high concentrations of isoleucine but not under oxygen deprivation conditions when norvaline accumulates to substantial levels. Thus, AARS-based translational quality control is a key feature for bacterial adaptive response to oxygen deprivation. The non-essential role for editing under normal bacterial growth has important implications for the development of resistance to antimicrobial agents targeting the LeuRS editing site.


    Organizational Affiliation

    Department of Chemistry, Faculty of Science University of Zagreb, Zagreb, Croatia.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
LEUCINE--TRNA LIGASE
A, D
880Escherichia coli (strain K12)Gene Names: leuS
EC: 6.1.1.4
Find proteins for P07813 (Escherichia coli (strain K12))
Go to UniProtKB:  P07813
Entity ID: 2
MoleculeChainsLengthOrganism
ESCHERICHIA COLI TRNA-LEU UAA ISOACCEPTORB,E82Escherichia coli
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, D
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
ILA
Query on ILA

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Download CCD File 
A, D
N-[ISOLEUCINYL]-N'-[ADENOSYL]-DIAMINOSUFONE
C16 H26 N8 O6 S
XVTRBLLRODNOJV-VBJYJYTRSA-N
 Ligand Interaction
MG
Query on MG

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.214 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 155.620α = 90.00
b = 67.580β = 105.00
c = 224.590γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
XDSdata reduction
XSCALEdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-07-02
    Type: Initial release
  • Version 1.1: 2014-08-13
    Type: Database references