4UCZ

X-ray structure and activities of an essential Mononegavirales L- protein domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free: 
    0.237 (Depositor), 0.232 (DCC) 
  • R-Value Work: 
    0.197 (Depositor), 0.206 (DCC) 
  • R-Value Observed: 
    0.199 (Depositor) 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted GTPClick on this verticalbar to view detailsBest fitted GMPClick on this verticalbar to view details

This is version 1.2 of the entry. See complete history


Literature

X-Ray Structure and Activities of an Essential Mononegavirales L-Protein Domain.

Paesen, G.C.Collet, A.Sallamand, C.Debart, F.Vasseur, J.J.Canard, B.Decroly, E.Grimes, J.M.

(2015) Nat Commun 6: 8749

  • DOI: https://doi.org/10.1038/ncomms9749
  • Primary Citation of Related Structures:  
    4UCI, 4UCJ, 4UCK, 4UCL, 4UCY, 4UCZ, 4UD0

  • PubMed Abstract: 

    The L protein of mononegaviruses harbours all catalytic activities for genome replication and transcription. It contains six conserved domains (CR-I to -VI; Fig. 1a). CR-III has been linked to polymerase and polyadenylation activity, CR-V to mRNA capping and CR-VI to cap methylation. However, how these activities are choreographed is poorly understood. Here we present the 2.2-Å X-ray structure and activities of CR-VI+, a portion of human Metapneumovirus L consisting of CR-VI and the poorly conserved region at its C terminus, the +domain. The CR-VI domain has a methyltransferase fold, which besides the typical S-adenosylmethionine-binding site ((SAM)P) also contains a novel pocket ((NS)P) that can accommodate a nucleoside. CR-VI lacks an obvious cap-binding site, and the (SAM)P-adjoining site holding the nucleotides undergoing methylation ((SUB)P) is unusually narrow because of the overhanging +domain. CR-VI+ sequentially methylates caps at their 2'O and N7 positions, and also displays nucleotide triphosphatase activity.


  • Organizational Affiliation

    Division of Structural Biology, Wellcome Trust Centre for Human Genetics, Oxford OX3 7BN, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RNA-DIRECTED RNA POLYMERASE L
A, B
415human metapneumovirusMutation(s): 0 
EC: 2.7.7.48 (UniProt), 2.1.1.375 (UniProt), 2.7.7.88 (UniProt)
UniProt
Find proteins for Q91L20 (human metapneumovirus)
Explore Q91L20 
Go to UniProtKB:  Q91L20
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ91L20
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.99 Å
  • R-Value Free:  0.237 (Depositor), 0.232 (DCC) 
  • R-Value Work:  0.197 (Depositor), 0.206 (DCC) 
  • R-Value Observed: 0.199 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.8α = 90
b = 83.71β = 90
c = 182.64γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
xia2data reduction
xia2data scaling

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted GTPClick on this verticalbar to view detailsBest fitted GMPClick on this verticalbar to view details

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-11-18
    Type: Initial release
  • Version 1.1: 2019-04-24
    Changes: Data collection, Other, Source and taxonomy
  • Version 1.2: 2024-10-16
    Changes: Data collection, Database references, Derived calculations, Other, Structure summary