4MIW

High-resolution structure of the N-terminal endonuclease domain of the Lassa virus L polymerase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.72 Å
  • R-Value Free: 0.178 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.166 

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This is version 1.1 of the entry. See complete history


Literature

High-resolution structure of the N-terminal endonuclease domain of the lassa virus L polymerase in complex with magnesium ions.

Wallat, G.D.Huang, Q.Wang, W.Dong, H.Ly, H.Liang, Y.Dong, C.

(2014) PLoS One 9: e87577-e87577

  • DOI: 10.1371/journal.pone.0087577
  • Primary Citation of Related Structures:  
    4MIW

  • PubMed Abstract: 
  • Lassa virus (LASV) causes deadly hemorrhagic fever disease for which there are no vaccines and limited treatments. LASV-encoded L polymerase is required for viral RNA replication and transcription. The functional domains of L-a large protein of 2218 amino acid residues-are largely undefined, except for the centrally located RNA-dependent RNA polymerase (RdRP) motif ...

    Lassa virus (LASV) causes deadly hemorrhagic fever disease for which there are no vaccines and limited treatments. LASV-encoded L polymerase is required for viral RNA replication and transcription. The functional domains of L-a large protein of 2218 amino acid residues-are largely undefined, except for the centrally located RNA-dependent RNA polymerase (RdRP) motif. Recent structural and functional analyses of the N-terminal region of the L protein from lymphocytic choriomeningitis virus (LCMV), which is in the same Arenaviridae family as LASV, have identified an endonuclease domain that presumably cleaves the cap structures of host mRNAs in order to initiate viral transcription. Here we present a high-resolution crystal structure of the N-terminal 173-aa region of the LASV L protein (LASV L173) in complex with magnesium ions at 1.72 Å. The structure is highly homologous to other known viral endonucleases of arena- (LCMV NL1), orthomyxo- (influenza virus PA), and bunyaviruses (La Crosse virus NL1). Although the catalytic residues (D89, E102 and K122) are highly conserved among the known viral endonucleases, LASV L endonuclease structure shows some notable differences. Our data collected from in vitro endonuclease assays and a reporter-based LASV minigenome transcriptional assay in mammalian cells confirm structural prediction of LASV L173 as an active endonuclease. The high-resolution structure of the LASV L endonuclease domain in complex with magnesium ions should aid the development of antivirals against lethal Lassa hemorrhagic fever.


    Organizational Affiliation

    Biomedical Science Research Complex, School of Chemistry, University of St. Andrews, Fife, St. Andrews, United Kingdom ; Norwich Medical School, University of East Anglia, Norwich Research Park, Norwich, United Kingdom.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
RNA-directed RNA polymerase LA178Lassa mammarenavirusMutation(s): 0 
Gene Names: L
EC: 2.7.7.48 (PDB Primary Data), 3.1 (UniProt)
Find proteins for Q6GWS2 (Lassa virus (strain Mouse/Sierra Leone/Josiah/1976))
Explore Q6GWS2 
Go to UniProtKB:  Q6GWS2
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download Ideal Coordinates CCD File 
B [auth A], C [auth A]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.72 Å
  • R-Value Free: 0.178 
  • R-Value Work: 0.165 
  • R-Value Observed: 0.166 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 57.72α = 90
b = 57.72β = 90
c = 134.51γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHASESphasing
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
DNAdata collection

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-03-19
    Type: Initial release
  • Version 1.1: 2019-07-17
    Changes: Data collection, Refinement description