1W8X

Structural analysis of PRD1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.20 Å

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This is version 1.1 of the entry. See complete history


Literature

Insights Into Assembly from Structural Analysis of Bacteriophage Prd1.

Abrescia, N.G.A.Cockburn, J.J.B.Grimes, J.M.Sutton, G.C.Diprose, J.M.Butcher, S.J.Fuller, S.D.San Martin, C.Burnett, R.M.Stuart, D.I.Bamford, D.H.Bamford, J.K.H.

(2004) Nature 432: 68

  • DOI: 10.1038/nature03056
  • Primary Citation of Related Structures:  
    1W8X

  • PubMed Abstract: 
  • The structure of the membrane-containing bacteriophage PRD1 has been determined by X-ray crystallography at about 4 A resolution. Here we describe the structure and location of proteins P3, P16, P30 and P31. Different structural proteins seem to have specialist roles in controlling virus assembly ...

    The structure of the membrane-containing bacteriophage PRD1 has been determined by X-ray crystallography at about 4 A resolution. Here we describe the structure and location of proteins P3, P16, P30 and P31. Different structural proteins seem to have specialist roles in controlling virus assembly. The linearly extended P30 appears to nucleate the formation of the icosahedral facets (composed of trimers of the major capsid protein, P3) and acts as a molecular tape-measure, defining the size of the virus and cementing the facets together. Pentamers of P31 form the vertex base, interlocking with subunits of P3 and interacting with the membrane protein P16. The architectural similarities with adenovirus and one of the largest known virus particles PBCV-1 support the notion that the mechanism of assembly of PRD1 is scaleable and applies across the major viral lineage formed by these viruses.


    Organizational Affiliation

    Division of Structural Biology, The Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Headington, Oxford OX3 7BN, UK.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
MAJOR CAPSID PROTEIN (PROTEIN P3)
A, B, C, D, E, F, G, H
A, B, C, D, E, F, G, H, I, J, K, L
395Enterobacteria phage PRD1Mutation(s): 0 
Gene Names: III
UniProt
Find proteins for P22535 (Enterobacteria phage PRD1)
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Go to UniProtKB:  P22535
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN P30M83Enterobacteria phage PRD1Mutation(s): 0 
Gene Names: XXXP
UniProt
Find proteins for P27391 (Enterobacteria phage PRD1)
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Go to UniProtKB:  P27391
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN P31N126Enterobacteria phage PRD1Mutation(s): 0 
Gene Names: XXXIC
UniProt
Find proteins for P27384 (Enterobacteria phage PRD1)
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Go to UniProtKB:  P27384
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN P16O [auth P]117Enterobacteria phage PRD1Mutation(s): 0 
Gene Names: XVIS
UniProt
Find proteins for P27392 (Enterobacteria phage PRD1)
Explore P27392 
Go to UniProtKB:  P27392
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.20 Å
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 903α = 90
b = 920.6β = 90
c = 926.2γ = 90
Software Package:
Software NamePurpose
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
CNSphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-11-11
    Type: Initial release
  • Version 1.1: 2015-04-15
    Changes: Database references, Derived calculations, Other, Version format compliance