1ZDJ

STRUCTURE OF BACTERIOPHAGE COAT PROTEIN-LOOP RNA COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Work: 0.182 
  • R-Value Observed: 0.182 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystallographic studies of RNA hairpins in complexes with recombinant MS2 capsids: implications for binding requirements.

Grahn, E.Stonehouse, N.J.Murray, J.B.van den Worm, S.Valegard, K.Fridborg, K.Stockley, P.G.Liljas, L.

(1999) RNA 5: 131-138

  • DOI: 10.1017/s1355838299981645
  • Primary Citation of Related Structures:  
    1ZDK, 1ZDJ

  • PubMed Abstract: 
  • The coat protein of bacteriophage MS2 is known to bind specifically to an RNA hairpin formed within the MS2 genome. Structurally this hairpin is built up by an RNA double helix interrupted by one unpaired nucleotide and closed by a four-nucleotide loop. We have performed crystallographic studies of complexes between MS2 coat protein capsids and four RNA hairpin variants in order to evaluate the minimal requirements for tight binding to the coat protein and to obtain more information about the three-dimensional structure of these hairpins ...

    The coat protein of bacteriophage MS2 is known to bind specifically to an RNA hairpin formed within the MS2 genome. Structurally this hairpin is built up by an RNA double helix interrupted by one unpaired nucleotide and closed by a four-nucleotide loop. We have performed crystallographic studies of complexes between MS2 coat protein capsids and four RNA hairpin variants in order to evaluate the minimal requirements for tight binding to the coat protein and to obtain more information about the three-dimensional structure of these hairpins. An RNA fragment including the four loop nucleotides and a two-base-pair stem but without the unpaired nucleotide is sufficient for binding to the coat protein shell under the conditions used in this study. In contrast, an RNA fragment containing a stem with the unpaired nucleotide but missing the loop nucleotides does not bind to the protein shell.


    Related Citations: 
    • Crystal Structure of an RNA Bacteriophage Coat Protein-Operator Complex
      Valegard, K., Murray, J.B., Stockley, P.G., Stonehouse, N.J., Liljas, L.
      (1994) Nature 371: 623
    • The Refined Structure of Bacteriophage MS2 at 2.8 A Resolution
      Golmohammadi, R., Valegard, K., Fridborg, K., Liljas, L.
      (1993) J Mol Biol 234: 620

    Organizational Affiliation

    Department of Molecular Biology, Uppsala University, Sweden.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (MS2 PROTEIN CAPSID)C [auth A], D [auth B], E [auth C]129Escherichia phage MS2Mutation(s): 0 
UniProt
Find proteins for P03612 (Escherichia phage MS2)
Explore P03612 
Go to UniProtKB:  P03612
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    RNA (5'-R(*GP*GP*AP*UP*CP*AP*CP*C)-3')A [auth R], B [auth S]8N/A
    Protein Feature View
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    • Reference Sequence
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.90 Å
    • R-Value Work: 0.182 
    • R-Value Observed: 0.182 
    • Space Group: H 3 2
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 288α = 90
    b = 288β = 90
    c = 653γ = 120
    Software Package:
    Software NamePurpose
    X-PLORrefinement
    DENZOdata reduction
    CCP4data scaling
    ROTAVATA)data scaling

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 1998-07-08
      Type: Initial release
    • Version 1.1: 2008-05-22
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance