7NLG

S. cerevisiae Ty1 p22 restriction factor, Gag CA-CTD, AUG2 variant A273V mutant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.53 Å
  • R-Value Free: 0.272 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.227 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structure of a Ty1 restriction factor reveals the molecular basis of transposition copy number control.

Cottee, M.A.Beckwith, S.L.Letham, S.C.Kim, S.J.Young, G.R.Stoye, J.P.Garfinkel, D.J.Taylor, I.A.

(2021) Nat Commun 12: 5590-5590

  • DOI: https://doi.org/10.1038/s41467-021-25849-0
  • Primary Citation of Related Structures:  
    7NLG, 7NLH, 7NLI

  • PubMed Abstract: 

    Excessive replication of Saccharomyces cerevisiae Ty1 retrotransposons is regulated by Copy Number Control, a process requiring the p22/p18 protein produced from a sub-genomic transcript initiated within Ty1 GAG. In retrotransposition, Gag performs the capsid functions required for replication and re-integration. To minimize genomic damage, p22/p18 interrupts virus-like particle function by interaction with Gag. Here, we present structural, biophysical and genetic analyses of p18m, a minimal fragment of Gag that restricts transposition. The 2.8 Å crystal structure of p18m reveals an all α-helical protein related to mammalian and insect ARC proteins. p18m retains the capacity to dimerise in solution and the crystal structures reveal two exclusive dimer interfaces. We probe our findings through biophysical analysis of interface mutants as well as Ty1 transposition and p18m restriction in vivo. Our data provide insight into Ty1 Gag structure and suggest how p22/p18 might function in restriction through a blocking-of-assembly mechanism.


  • Organizational Affiliation

    Macromolecular Structure Laboratory, The Francis Crick Institute, London, UK.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ty1 Gag p22
A, B, C
106Saccharomyces cerevisiaeMutation(s): 1 
Gene Names: TY1AGAGTYA1
UniProt
Find proteins for P08405 (Saccharomyces cerevisiae)
Explore P08405 
Go to UniProtKB:  P08405
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08405
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.53 Å
  • R-Value Free: 0.272 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.227 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 279.873α = 90
b = 279.873β = 90
c = 39.923γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
REFMACrefinement
Cootmodel building
PDB_EXTRACTdata extraction
DIALSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (MRC, United Kingdom)United KingdomFC001178
Wellcome TrustUnited KingdomFC001178
Cancer Research UKUnited KingdomFC001178

Revision History  (Full details and data files)

  • Version 1.0: 2021-10-06
    Type: Initial release