1IFP

INOVIRUS (FILAMENTOUS BACTERIOPHAGE) STRAIN PF3 MAJOR COAT PROTEIN ASSEMBLY


Experimental Data Snapshot

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    This is version 1.2 of the entry. See complete history


    Literature

    Structure of the capsid of Pf3 filamentous phage determined from X-ray fibre diffraction data at 3.1 A resolution.

    Welsh, L.C.Symmons, M.F.Sturtevant, J.M.Marvin, D.A.Perham, R.N.

    (1998) J Mol Biol 283: 155-177

    • DOI: 10.1006/jmbi.1998.2081
    • Primary Citation of Related Structures:  
      1IFP

    • PubMed Abstract: 
    • We have recorded X-ray diffraction patterns at 3.1 A resolution from magnetically aligned fibres of the Pf3 strain of filamentous bacteriophage (Inovirus). The patterns are similar to patterns from the higher-temperature form of the Pf1 strain, indicating that the Pf3 and Pf1 virions have the same helix symmetry and similar protein subunit shape ...

      We have recorded X-ray diffraction patterns at 3.1 A resolution from magnetically aligned fibres of the Pf3 strain of filamentous bacteriophage (Inovirus). The patterns are similar to patterns from the higher-temperature form of the Pf1 strain, indicating that the Pf3 and Pf1 virions have the same helix symmetry and similar protein subunit shape. This is of particular interest, given that the primary structures of the two protein subunits are quite different; and the nucleotide/protein subunit ratio in the Pf3 virion is more than twice that in Pf1, indicating important differences in DNA packaging. We have built a molecular model of the Pf3 protein capsid based on the model of Pf1, and refined it against the diffraction data using simulated annealing. The refinement confirms that the two structures are similar, which may reflect a fundamental motif of alpha-helix packing. However, there are some differences between the structures: the Pf3 subunit appears to be completely alpha-helical, beginning at the N terminus, whereas the first few residues of the Pf1 subunit are not helical; and the structure of the C-terminal region of the Pf3 subunit at the inner surface of the tubular capsid indicates that DNA/protein interactions in this virion may involve both aromatic side-chains and positively charged side-chains, whereas those in the Pf1 virion involve predominantly only the latter. In the course of this work, we have developed new approaches to refinement and validation of helical structures with respect to continuous transform fibre diffraction data.


      Related Citations: 
      • Pf1 Filamentous Bacteriophage: Refinement of a Molecular Model by Simulated Annealing Using 3.3 A Resolution X-Ray Fibre Diffraction Data
        Gonzalez, A., Nave, C., Marvin, D.A.
        (1995) Acta Crystallogr D Biol Crystallogr 51: 792
      • Two Forms of Pf1 Inovirus: X-Ray Diffraction Studies on a Structural Phase Transition and a Calculated Libration Normal Mode of the Asymmetric Unit
        Marvin, D.A., Nave, C., Bansal, M., Hale, R.D., Salje, E.K.H.
        (1992) Ph Transit 39: 45
      • Model-Building Studies of Inovirus: Genetic Variations on a Geometric Theme
        Marvin, D.A.
        (1990) Int J Biol Macromol 12: 125
      • Erratum. Model-Building Studies of Inovirus: Genetic Variations on a Geometric Theme
        Marvin, D.A.
        (1990) Int J Biol Macromol 12: 335
      • Dynamics of Telescoping Inovirus: A Mechanism for Assembly at Membrane Adhesions
        Marvin, D.A.
        (1989) Int J Biol Macromol 11: 159

      Organizational Affiliation

      Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge, CB2 1GA, UK.



    Macromolecules
    Find similar proteins by:  (by identity cutoff)  |  Structure
    Entity ID: 1
    MoleculeChainsSequence LengthOrganismDetailsImage
    MAJOR COAT PROTEIN ASSEMBLYA44Pseudomonas phage Pf3Mutation(s): 0 
    Gene Names: VIII
    Membrane Entity: Yes 
    UniProt
    Find proteins for P03623 (Pseudomonas phage Pf3)
    Explore P03623 
    Go to UniProtKB:  P03623
    Protein Feature View
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    • Reference Sequence
    Experimental Data & Validation

    Experimental Data

    • Space Group: P 1
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 1α = 90
    b = 1β = 90
    c = 1γ = 90
    Software Package:
    Software NamePurpose
    X-PLORmodel building
    X-PLORrefinement
    CCP13data reduction
    CCP13-FDSCALEdata scaling
    X-PLORphasing

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 1998-11-04
      Type: Initial release
    • Version 1.1: 2008-03-24
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance