9CCV | pdb_00009ccv

Crystal structure of human respiratory syncytial virus NS1 bound to human MED25 ACID


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.53 Å
  • R-Value Free: 
    0.262 (Depositor), 0.265 (DCC) 
  • R-Value Work: 
    0.242 (Depositor), 0.245 (DCC) 
  • R-Value Observed: 
    0.243 (Depositor) 

Starting Models: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Molecular basis for human respiratory syncytial virus transcriptional regulator NS1 interactions with MED25.

Kalita, P.Khatavkar, O.Uwase, G.Korshunova, Y.Hu, Y.Wagner, N.D.Xu, J.Pan, J.Nix, J.C.Gross, M.L.Brody, S.L.Borek, D.Amarasinghe, G.K.Payton, J.E.Leung, D.W.

(2025) Nat Commun 16: 2883-2883

  • DOI: https://doi.org/10.1038/s41467-025-58216-4
  • Primary Citation of Related Structures:  
    9CCV

  • PubMed Abstract: 

    The Mediator complex facilitates interactions between transcription factors and RNA polymerase II, a process that is required for host gene transcription, including in response to viral infections. Among the many subunits in the Mediator complex, the MED25 subunit has been shown to be a target for viral activators during infection. Here we provide the molecular basis for the interaction between human respiratory syncytial virus (hRSV) nonstructural 1 protein (NS1) and the activator interaction domain (ACID) of MED25. The X-ray crystal structure of the complex revealed that NS1 straddles and binds two faces of MED25 ACID. This interaction is distinct from previously known viral activators. Importantly, our data support the conformational flexibility of viral transcriptional regulators. Furthermore, ChIP-seq and RNA-seq analysis identified the ATF3 transcription factor and a role for NS1/Mediator/ATF3 interaction in host gene regulation in hRSV infections. Our findings provide a molecular basis for hRSV NS1-based regulation of host gene transcription and reveal how viruses exploit the conformational heterogeneity at fuzzy transcription activator interfaces.


  • Organizational Affiliation

    Department of Medicine, Washington University School of Medicine, St. Louis, MO, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Non-structural protein 1141Human respiratory syncytial virus AMutation(s): 0 
Gene Names: NS1
UniProt
Find proteins for E0WLW8 (Human respiratory syncytial virus A)
Explore E0WLW8 
Go to UniProtKB:  E0WLW8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE0WLW8
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator of RNA polymerase II transcription subunit 25185Homo sapiensMutation(s): 0 
Gene Names: MED25ACID1ARC92PTOV2TCBAP0758
UniProt & NIH Common Fund Data Resources
Find proteins for Q71SY5 (Homo sapiens)
Explore Q71SY5 
Go to UniProtKB:  Q71SY5
PHAROS:  Q71SY5
GTEx:  ENSG00000104973 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ71SY5
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.53 Å
  • R-Value Free:  0.262 (Depositor), 0.265 (DCC) 
  • R-Value Work:  0.242 (Depositor), 0.245 (DCC) 
  • R-Value Observed: 0.243 (Depositor) 
Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 104.953α = 90
b = 104.953β = 90
c = 63.45γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI159678
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI140758

Revision History  (Full details and data files)

  • Version 1.0: 2025-04-09
    Type: Initial release