6N3H

Crystal structure of Kelch domain of the human NS1 binding protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.212 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural-functional interactions of NS1-BP protein with the splicing and mRNA export machineries for viral and host gene expression.

Zhang, K.Shang, G.Padavannil, A.Wang, J.Sakthivel, R.Chen, X.Kim, M.Thompson, M.G.Garcia-Sastre, A.Lynch, K.W.Chen, Z.J.Chook, Y.M.Fontoura, B.M.A.

(2018) Proc Natl Acad Sci U S A 115: E12218-E12227

  • DOI: 10.1073/pnas.1818012115
  • Primary Citation of Related Structures:  
    6N34, 6N3H

  • PubMed Abstract: 
  • The influenza virulence factor NS1 protein interacts with the cellular NS1-BP protein to promote splicing and nuclear export of the viral M mRNAs. The viral M1 mRNA encodes the M1 matrix protein and is alternatively spliced into the M2 mRNA, which is translated into the M2 ion channel ...

    The influenza virulence factor NS1 protein interacts with the cellular NS1-BP protein to promote splicing and nuclear export of the viral M mRNAs. The viral M1 mRNA encodes the M1 matrix protein and is alternatively spliced into the M2 mRNA, which is translated into the M2 ion channel. These proteins have key functions in viral trafficking and budding. To uncover the NS1-BP structural and functional activities in splicing and nuclear export, we performed proteomics analysis of nuclear NS1-BP binding partners and showed its interaction with constituents of the splicing and mRNA export machineries. NS1-BP BTB domains form dimers in the crystal. Full-length NS1-BP is a dimer in solution and forms at least a dimer in cells. Mutations suggest that dimerization is important for splicing. The central BACK domain of NS1-BP interacts directly with splicing factors such as hnRNP K and PTBP1 and with the viral NS1 protein. The BACK domain is also the site for interactions with mRNA export factor Aly/REF and is required for viral M mRNA nuclear export. The crystal structure of the C-terminal Kelch domain shows that it forms a β-propeller fold, which is required for the splicing function of NS1-BP. This domain interacts with the polymerase II C-terminal domain and SART1, which are involved in recruitment of splicing factors and spliceosome assembly, respectively. NS1-BP functions are not only critical for processing a subset of viral mRNAs but also impact levels and nuclear export of a subset of cellular mRNAs encoding factors involved in metastasis and immunity.


    Organizational Affiliation

    Department of Cell Biology, University of Texas Southwestern Medical Center, Dallas, TX 75390; Yuhmin.Chook@utsouthwestern.edu Beatriz.Fontoura@UTSouthwestern.edu.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Influenza virus NS1A-binding proteinA, B331Homo sapiensMutation(s): 0 
Gene Names: IVNS1ABPARA3FLARA3KIAA0850KLHL39NS1NS1BPHSPC068
Find proteins for Q9Y6Y0 (Homo sapiens)
Explore Q9Y6Y0 
Go to UniProtKB:  Q9Y6Y0
NIH Common Fund Data Resources
PHAROS:  Q9Y6Y0
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.60 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.212 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 77.196α = 90
b = 61.885β = 95.18
c = 87.339γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data collection
HKL-2000data scaling
HKL-3000data reduction
PHENIXphasing
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Welch FoundationUnited StatesI-1532

Revision History  (Full details and data files)

  • Version 1.0: 2018-12-12
    Type: Initial release
  • Version 1.1: 2018-12-19
    Changes: Data collection, Database references
  • Version 1.2: 2019-01-09
    Changes: Data collection, Database references