6ATV

The molecular mechanisms by which NS1 of the 1918 Spanish influenza A virus hijack host protein-protein interactions


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.186 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular Mechanisms of Tight Binding through Fuzzy Interactions.

Shen, Q.Shi, J.Zeng, D.Zhao, B.Li, P.Hwang, W.Cho, J.H.

(2018) Biophys J 114: 1313-1320

  • DOI: https://doi.org/10.1016/j.bpj.2018.01.031
  • Primary Citation of Related Structures:  
    6ATV

  • PubMed Abstract: 

    Many intrinsically disordered proteins (IDPs) form fuzzy complexes upon binding to their targets. Although many IDPs are weakly bound in fuzzy complexes, some IDPs form high-affinity complexes. One example is the nonstructural protein 1 (NS1) of the 1918 Spanish influenza A virus, which hijacks cellular CRKII through the strong binding affinity (K d ∼10 nM) of its proline-rich motif (PRM NS1 ) to the N-terminal Src-homology 3 domain of CRKII. However, its molecular mechanism remains elusive. Here, we examine the interplay between structural disorder of a bound PRM NS1 and its long-range electrostatic interactions. Using x-ray crystallography and NMR spectroscopy, we found that PRM NS1 retains substantial conformational flexibility in the bound state. Moreover, molecular dynamics simulations showed that structural disorder of the bound PRM NS1 increases the number of electrostatic interactions and decreases the mean distances between the positively charged residues in PRM NS1 and the acidic residues in the N-terminal Src-homology 3 domain. These results are analyzed using a polyelectrostatic model. Our results provide an insight into the molecular recognition mechanism for a high-affinity fuzzy complex.


  • Organizational Affiliation

    Department of Biochemistry and Biophysics, Texas A&M University, College Station, Texas.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Adapter molecule crk58Homo sapiensMutation(s): 0 
Gene Names: CRK
UniProt & NIH Common Fund Data Resources
Find proteins for P46108 (Homo sapiens)
Explore P46108 
Go to UniProtKB:  P46108
PHAROS:  P46108
GTEx:  ENSG00000167193 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP46108
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
proline-rich motif in IAV-NS1B [auth M]15OrthomyxoviridaeMutation(s): 0 
UniProt
Find proteins for Q99AU3 (Influenza A virus (strain A/Brevig Mission/1/1918 H1N1))
Explore Q99AU3 
Go to UniProtKB:  Q99AU3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99AU3
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 0.205 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.186 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 39.84α = 90
b = 39.84β = 90
c = 171.951γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-08-08
    Type: Initial release
  • Version 1.1: 2023-10-04
    Changes: Data collection, Database references, Refinement description