6PZQ

Structure of the human respiratory syncytial virus M2-1 protein in complex with a short positive-sense gene-end RNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.228 

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This is version 1.1 of the entry. See complete history


Literature

Structure of the Human Respiratory Syncytial Virus M2-1 Protein in Complex with a Short Positive-Sense Gene-End RNA.

Gao, Y.Cao, D.Pawnikar, S.John, K.P.Ahn, H.M.Hill, S.Ha, J.M.Parikh, P.Ogilvie, C.Swain, A.Yang, A.Bell, A.Salazar, A.Miao, Y.Liang, B.

(2020) Structure 28: 979

  • DOI: 10.1016/j.str.2020.07.001
  • Primary Citation of Related Structures:  
    6PZQ

  • PubMed Abstract: 
  • The M2-1 protein of human respiratory syncytial virus (HRSV) is a transcription anti-terminator that regulates the processivity of the HRSV RNA-dependent RNA polymerase (RdRP). Here, we report a crystal structure of HRSV M2-1 bound to a short positive-sense gene-end RNA (SH7) at 2 ...

    The M2-1 protein of human respiratory syncytial virus (HRSV) is a transcription anti-terminator that regulates the processivity of the HRSV RNA-dependent RNA polymerase (RdRP). Here, we report a crystal structure of HRSV M2-1 bound to a short positive-sense gene-end RNA (SH7) at 2.7 Å resolution. We identified multiple critical residues of M2-1 involved in RNA interaction and examined their roles using mutagenesis and MicroScale Thermophoresis (MST) assay. We found that hydrophobic residue Phe23 is indispensable for M2-1 to recognize the base of RNA. We also captured spontaneous binding of RNA (SH7) to M2-1 in all-atom simulations using a robust Gaussian accelerated molecular dynamics (GaMD) method. Both experiments and simulations revealed that the interactions of RNA with two separate domains of M2-1, the zinc-binding domain (ZBD) and the core domain (CD), are independent of each other. Collectively, our results provided a structural basis for RNA recognition by HRSV M2-1.


    Organizational Affiliation

    Department of Biochemistry, Emory University School of Medicine, Atlanta, GA 30322 USA. Electronic address: bo.liang@emory.edu.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Matrix M2-1 ABCD194Human respiratory syncytial virus A2Mutation(s): 0 
Gene Names: M2-1
Find proteins for P04545 (Human respiratory syncytial virus A (strain A2))
Explore P04545 
Go to UniProtKB:  P04545
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(P*GP*UP*UP*AP*AP*U)-3')I, J7Human respiratory syncytial virus A2
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.70 Å
    • R-Value Free: 0.288 
    • R-Value Work: 0.225 
    • R-Value Observed: 0.228 
    • Space Group: P 41 21 2
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 94.75α = 90
    b = 94.75β = 90
    c = 199.63γ = 90
    Software Package:
    Software NamePurpose
    PHENIXrefinement
    MOSFLMdata reduction
    SCALAdata scaling
    PHASERphasing
    PDB_EXTRACTdata extraction

    Structure Validation

    View Full Validation Report



    Entry History & Funding Information

    Deposition Data


    Funding OrganizationLocationGrant Number
    National Institutes of Health/National Institute on Deafness and Other Communication Disorders (NIH/NIDCD)United StatesR01GM130950

    Revision History  (Full details and data files)

    • Version 1.0: 2020-08-05
      Type: Initial release
    • Version 1.1: 2020-09-16
      Changes: Database references