4MGU

Crystal structure of Acheta domesticus Densovirus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.290 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The structure and host entry of an invertebrate parvovirus.

Meng, G.Zhang, X.Plevka, P.Yu, Q.Tijssen, P.Rossmann, M.G.

(2013) J.Virol. 87: 12523-12530

  • DOI: 10.1128/JVI.01822-13

  • PubMed Abstract: 
  • The 3.5-Å resolution X-ray crystal structure of mature cricket parvovirus (Acheta domesticus densovirus [AdDNV]) has been determined. Structural comparisons show that vertebrate and invertebrate parvoviruses have evolved independently, although there ...

    The 3.5-Å resolution X-ray crystal structure of mature cricket parvovirus (Acheta domesticus densovirus [AdDNV]) has been determined. Structural comparisons show that vertebrate and invertebrate parvoviruses have evolved independently, although there are common structural features among all parvovirus capsid proteins. It was shown that raising the temperature of the AdDNV particles caused a loss of their genomes. The structure of these emptied particles was determined by cryo-electron microscopy to 5.5-Å resolution, and the capsid structure was found to be the same as that for the full, mature virus except for the absence of the three ordered nucleotides observed in the crystal structure. The viral protein 1 (VP1) amino termini could be externalized without significant damage to the capsid. In vitro, this externalization of the VP1 amino termini is accompanied by the release of the viral genome.


    Organizational Affiliation

    Department of Biological Sciences, Purdue University, West Lafayette, Indiana, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Structural protein VP2
A
428Acheta domestica densovirusN/A
Find proteins for F2Y986 (Acheta domestica densovirus)
Go to UniProtKB:  F2Y986
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(P*TP*TP*T)-3')C3Acheta domesticus
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.290 
  • Space Group: P 42 21 2
Unit Cell:
Length (Å)Angle (°)
a = 415.469α = 90.00
b = 415.469β = 90.00
c = 281.930γ = 90.00
Software Package:
Software NamePurpose
GLRFphasing
CNSrefinement
HKL-2000data scaling
MAR345dtbdata collection
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-10-30
    Type: Initial release
  • Version 1.1: 2013-11-27
    Type: Database references
  • Version 1.2: 2013-12-18
    Type: Refinement description