7BYF

The crystal structure of mouse ORF10-Rae1-Nup98 complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.185 

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This is version 1.0 of the entry. See complete history


Literature

Molecular mechanism underlying selective inhibition of mRNA nuclear export by herpesvirus protein ORF10.

Feng, H.Tian, H.Wang, Y.Zhang, Q.Lin, N.Liu, S.Yu, Y.Deng, H.Gao, P.

(2020) Proc Natl Acad Sci U S A 117: 26719-26727

  • DOI: https://doi.org/10.1073/pnas.2007774117
  • Primary Citation of Related Structures:  
    7BYF

  • PubMed Abstract: 

    Viruses employ multiple strategies to inhibit host mRNA nuclear export. Distinct to the generally nonselective inhibition mechanisms, ORF10 from gammaherpesviruses inhibits mRNA export in a transcript-selective manner by interacting with Rae1 (RNA export 1) and Nup98 (nucleoporin 98). We now report the structure of ORF10 from MHV-68 (murine gammaherpesvirus 68) bound to the Rae1-Nup98 heterodimer, thereby revealing detailed intermolecular interactions. Structural and functional assays highlight that two highly conserved residues of ORF10, L60 and M413, play critical roles in both complex assembly and mRNA export inhibition. Interestingly, although ORF10 occupies the RNA-binding groove of Rae1-Nup98, the ORF10-Rae1-Nup98 ternary complex still maintains a comparable RNA-binding ability due to the ORF10-RNA direct interaction. Moreover, mutations on the RNA-binding surface of ORF10 disrupt its function of mRNA export inhibition. Our work demonstrates the molecular mechanism of ORF10-mediated selective inhibition and provides insights into the functions of Rae1-Nup98 in regulating host mRNA export.


  • Organizational Affiliation

    CAS Key Laboratory of Infection and Immunity, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
mRNA export factorA,
E [auth D]
347Mus musculusMutation(s): 0 
Gene Names: Rae1Mrnp41
UniProt
Find proteins for Q8C570 (Mus musculus)
Explore Q8C570 
Go to UniProtKB:  Q8C570
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8C570
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Peptidase S59 domain-containing proteinB,
F [auth E]
57Mus musculusMutation(s): 0 
Gene Names: Nup98
UniProt & NIH Common Fund Data Resources
Find proteins for Q6PFD9 (Mus musculus)
Explore Q6PFD9 
Go to UniProtKB:  Q6PFD9
IMPC:  MGI:109404
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UniProt GroupQ6PFD9
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
10 proteinC [auth F],
D [auth C]
418Murid gammaherpesvirus 4Mutation(s): 0 
Gene Names: GAMMAHV.ORF1010ORF10
UniProt
Find proteins for O41931 (Murid herpesvirus 4)
Explore O41931 
Go to UniProtKB:  O41931
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO41931
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
HG (Subject of Investigation/LOI)
Query on HG

Download Ideal Coordinates CCD File 
AA [auth C]
BA [auth C]
CA [auth C]
EA [auth D]
FA [auth D]
AA [auth C],
BA [auth C],
CA [auth C],
EA [auth D],
FA [auth D],
G [auth A],
GA [auth D],
H [auth A],
HA [auth D],
I [auth A],
J [auth A],
M [auth F],
N [auth F],
O [auth F],
P [auth F],
Q [auth F],
R [auth F],
S [auth F],
T [auth F],
V [auth C],
W [auth C],
X [auth C],
Y [auth C],
Z [auth C]
MERCURY (II) ION
Hg
BQPIGGFYSBELGY-UHFFFAOYSA-N
NA (Subject of Investigation/LOI)
Query on NA

Download Ideal Coordinates CCD File 
DA [auth D],
K [auth F],
L [auth F],
U [auth C]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.233 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.185 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 135.397α = 90
b = 150.63β = 111.03
c = 101.618γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling
PHENIXphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-03-24
    Type: Initial release