6QGM

VirX1 apo structure


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.216 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

A marine viral halogenase that iodinates diverse substrates.

Gkotsi, D.S.Ludewig, H.Sharma, S.V.Connolly, J.A.Dhaliwal, J.Wang, Y.Unsworth, W.P.Taylor, R.J.K.McLachlan, M.M.W.Shanahan, S.Naismith, J.H.Goss, R.J.M.

(2019) Nat.Chem. 11: 1091-1097

  • DOI: 10.1038/s41557-019-0349-z

  • PubMed Abstract: 
  • Oceanic cyanobacteria are the most abundant oxygen-generating phototrophs on our planet and are therefore important to life. These organisms are infected by viruses called cyanophages, which have recently shown to encode metabolic genes that modulate ...

    Oceanic cyanobacteria are the most abundant oxygen-generating phototrophs on our planet and are therefore important to life. These organisms are infected by viruses called cyanophages, which have recently shown to encode metabolic genes that modulate host photosynthesis, phosphorus cycling and nucleotide metabolism. Herein we report the characterization of a wild-type flavin-dependent viral halogenase (VirX1) from a cyanophage. Notably, halogenases have been previously associated with secondary metabolism, tailoring natural products. Exploration of this viral halogenase reveals it capable of regioselective halogenation of a diverse range of substrates with a preference for forming aryl iodide species; this has potential implications for the metabolism of the infected host. Until recently, a flavin-dependent halogenase that is capable of iodination in vitro had not been reported. VirX1 is interesting from a biocatalytic perspective as it shows strikingly broad substrate flexibility and a clear preference for iodination, as illustrated by kinetic analysis. These factors together render it an attractive tool for synthesis.


    Organizational Affiliation

    School of Chemistry, University of St Andrews, North Haugh, St Andrews, Fife, UK. rjmg@st-andrews.ac.uk.,Biomedical Sciences Research Complex, University of St Andrews, North Haugh, St Andrews, Fife, UK. rjmg@st-andrews.ac.uk.,Biomedical Sciences Research Complex, University of St Andrews, North Haugh, St Andrews, Fife, UK.,Department of Chemistry, University of York, Heslington, York, UK.,School of Chemistry, University of St Andrews, North Haugh, St Andrews, Fife, UK.,Division of Structural Biology, Wellcome Trust Centre of Human Genomics, Oxford, UK.,The Rosalind Franklin Institute, Didcot, UK.,Syngenta, Jealott's Hill International Research Centre, Bracknell, Berkshire, UK.,QEDDI, The University of Queensland, Brisbane, Queensland, Australia.,Research Complex at Harwell, Rutherford Laboratory, Didcot, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
VirX1
a, b, c, d, e, f
531Cyanophage Syn10Mutation(s): 0 
Find proteins for M4SKV1 (Cyanophage Syn10)
Go to UniProtKB:  M4SKV1
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.75 Å
  • R-Value Free: 0.259 
  • R-Value Work: 0.216 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 101.133α = 90.00
b = 172.979β = 112.89
c = 110.425γ = 90.00
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
PHASERphasing
Aimlessdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research CouncilUnited Kingdom614779

Revision History 

  • Version 1.0: 2019-10-30
    Type: Initial release
  • Version 1.1: 2019-12-04
    Type: Database references