5MUU

dsRNA bacteriophage phi6 nucleocapsid


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Double-stranded RNA virus outer shell assembly by bona fide domain-swapping.

Sun, Z.El Omari, K.Sun, X.Ilca, S.L.Kotecha, A.Stuart, D.I.Poranen, M.M.Huiskonen, J.T.

(2017) Nat Commun 8: 14814-14814

  • DOI: 10.1038/ncomms14814
  • Primary Citation of Related Structures:  
    5MUV, 5MUU, 5MUW

  • PubMed Abstract: 
  • Correct outer protein shell assembly is a prerequisite for virion infectivity in many multi-shelled dsRNA viruses. In the prototypic dsRNA bacteriophage φ6, the assembly reaction is promoted by calcium ions but its biomechanics remain poorly understood. Here, we describe the near-atomic resolution structure of the φ6 double-shelled particle ...

    Correct outer protein shell assembly is a prerequisite for virion infectivity in many multi-shelled dsRNA viruses. In the prototypic dsRNA bacteriophage φ6, the assembly reaction is promoted by calcium ions but its biomechanics remain poorly understood. Here, we describe the near-atomic resolution structure of the φ6 double-shelled particle. The outer T=13 shell protein P8 consists of two alpha-helical domains joined by a linker, which allows the trimer to adopt either a closed or an open conformation. The trimers in an open conformation swap domains with each other. Our observations allow us to propose a mechanistic model for calcium concentration regulated outer shell assembly. Furthermore, the structure provides a prime exemplar of bona fide domain-swapping. This leads us to extend the theory of domain-swapping from the level of monomeric subunits and multimers to closed spherical shells, and to hypothesize a mechanism by which closed protein shells may arise in evolution.


    Organizational Affiliation

    Department of Biosciences, University of Helsinki, Viikinkaari 9, Helsinki 00014, Finland.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Major inner protein P1A, B769Pseudomonas virus phi6Mutation(s): 0 
Gene Names: P1
UniProt
Find proteins for P11126 (Pseudomonas phage phi6)
Explore P11126 
Go to UniProtKB:  P11126
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Packaging enzyme P4C332Pseudomonas virus phi6Mutation(s): 0 
Gene Names: P4
EC: 3.6.1.15
UniProt
Find proteins for P11125 (Pseudomonas phage phi6)
Explore P11125 
Go to UniProtKB:  P11125
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Major outer capsid protein
D, E, F, G, H, I, J, K
D, E, F, G, H, I, J, K, L, M
149Pseudomonas virus phi6Mutation(s): 0 
Gene Names: P8
UniProt
Find proteins for P07579 (Pseudomonas phage phi6)
Explore P07579 
Go to UniProtKB:  P07579
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-03-22
    Type: Initial release
  • Version 1.1: 2017-08-02
    Changes: Data collection, Experimental preparation
  • Version 1.2: 2019-02-20
    Changes: Advisory, Data collection, Derived calculations
  • Version 1.3: 2019-10-23
    Changes: Data collection, Other