4QYK

Crystal structure of a canine parvovirus variant


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.180 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Global Displacement of Canine Parvovirus by a Host-Adapted Variant: Structural Comparison between Pandemic Viruses with Distinct Host Ranges.

Organtini, L.J.Allison, A.B.Lukk, T.Parrish, C.R.Hafenstein, S.

(2015) J.Virol. 89: 1909-1912

  • DOI: 10.1128/JVI.02611-14

  • PubMed Abstract: 
  • Canine parvovirus type 2 (CPV-2) emerged in 1978 and spread worldwide within 2 years. Subsequently, CPV-2 was completely replaced by the variant CPV-2a, which is characterized by four specific capsid (VP2) mutations. The X-ray crystal structure of th ...

    Canine parvovirus type 2 (CPV-2) emerged in 1978 and spread worldwide within 2 years. Subsequently, CPV-2 was completely replaced by the variant CPV-2a, which is characterized by four specific capsid (VP2) mutations. The X-ray crystal structure of the CPV-2a capsid shows that each mutation confers small local changes. The loss of a hydrogen bond and introduction of a glycine residue likely introduce flexibility to sites that control interactions with the host receptor, antibodies, and sialic acids.


    Organizational Affiliation

    Department of Medicine, The Pennsylvania State University College of Medicine, Hershey, Pennsylvania, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Capsid protein VP1
A, E, J, N, Q, B, C, D, F, G, H, I, K, L, M, O, P, R, S, T, U, V, W, X, Y, Z, a, b, c, d
584Feline panleukopenia virusMutation(s): 0 
Find proteins for P90456 (Feline panleukopenia virus)
Go to UniProtKB:  P90456
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A, B, C, c, d, D, E, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, W, X, Y, Z
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.5 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.180 
  • Space Group: P 42 21 2
Unit Cell:
Length (Å)Angle (°)
a = 453.100α = 90.00
b = 453.100β = 90.00
c = 319.020γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
MOSFLMdata reduction
HKL-2000data collection
PHASERphasing
PHENIXrefinement
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-12-10
    Type: Initial release
  • Version 1.1: 2014-12-17
    Type: Advisory
  • Version 1.2: 2014-12-24
    Type: Structure summary
  • Version 1.3: 2015-01-28
    Type: Database references