2MJZ

Capsid model of M13 bacteriophage virus from Magic-angle spinning NMR and Rosetta modeling


Experimental Data Snapshot

  • Method: SOLID-STATE NMR
  • Conformers Calculated: 5000 
  • Conformers Submitted: 
  • Selection Criteria: target function 

wwPDB Validation 3D Report Full Report


This is version 1.4 of the entry. See complete history

Literature

The NMR-Rosetta capsid model of M13 bacteriophage reveals a quadrupled hydrophobic packing epitope.

Morag, O.Sgourakis, N.G.Baker, D.Goldbourt, A.

(2015) Proc.Natl.Acad.Sci.USA 112: 971-976

  • DOI: 10.1073/pnas.1415393112

  • PubMed Abstract: 
  • Filamentous phage are elongated semiflexible ssDNA viruses that infect bacteria. The M13 phage, belonging to the family inoviridae, has a length of ∼1 μm and a diameter of ∼7 nm. Here we present a structural model for the capsid of intact M13 bacteri ...

    Filamentous phage are elongated semiflexible ssDNA viruses that infect bacteria. The M13 phage, belonging to the family inoviridae, has a length of ∼1 μm and a diameter of ∼7 nm. Here we present a structural model for the capsid of intact M13 bacteriophage using Rosetta model building guided by structure restraints obtained from magic-angle spinning solid-state NMR experimental data. The C5 subunit symmetry observed in fiber diffraction studies was enforced during model building. The structure consists of stacked pentamers with largely alpha helical subunits containing an N-terminal type II β-turn; there is a rise of 16.6-16.7 Å and a tilt of 36.1-36.6° between consecutive pentamers. The packing of the subunits is stabilized by a repeating hydrophobic stacking pocket; each subunit participates in four pockets by contributing different hydrophobic residues, which are spread along the subunit sequence. Our study provides, to our knowledge, the first magic-angle spinning NMR structure of an intact filamentous virus capsid and further demonstrates the strength of this technique as a method of choice to study noncrystalline, high-molecular-weight molecular assemblies.


    Organizational Affiliation

    School of Chemistry, Raymond and Beverly Sackler Faculty of Exact Sciences, Tel Aviv University, Ramat Aviv 69978, Tel Aviv, Israel; and.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Capsid protein G8P
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, a, b, c, d, e, f, g, h, i
50Enterobacteria phage M13Gene Names: VIII
Find proteins for P69541 (Enterobacteria phage M13)
Go to UniProtKB:  P69541
Experimental Data & Validation

Experimental Data

  • Method: SOLID-STATE NMR
  • Conformers Calculated: 5000 
  • Conformers Submitted: 
  • Selection Criteria: target function 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-01-07
    Type: Initial release
  • Version 1.1: 2015-01-14
    Type: Database references, Structure summary
  • Version 1.2: 2015-01-21
    Type: Other
  • Version 1.3: 2015-02-04
    Type: Database references
  • Version 1.4: 2015-02-11
    Type: Database references