Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Icosahedral - I  (3D View)
Global Stoichiometry: Homo 60-mer - A60 

Biological assembly 1 assigned by authors and generated by (software)

Macromolecule Content

• Total Structure Weight: 64.85 kDa 
• Atom Count: 4620 
• Modelled Residue Count: 555 
• Deposited Residue Count: 559 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

1P5W

The structures of host range controlling regions of the capsids of canine and feline parvoviruses and mutants

• DOI: 10.2210/pdb1P5W/pdb
• NDB: PD0432

• Classification: Virus/DNA
• Organism(s): Canine parvovirus
• Expression System: Felis catus
• Mutation(s): Yes 


• Deposited: 2003-04-28 Released: 2003-08-26 
• Deposition Author(s): Agbandje-McKenna, M., Govindasamy, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free: 0.202 
• R-Value Work: 0.200 
• R-Value Observed: 0.200 

Literature

Structures of host range-controlling regions of the capsids of canine and feline parvoviruses and mutants.

Govindasamy, L., Hueffer, K., Parrish, C.R., Agbandje-McKenna, M.

(2003) J Virol 77: 12211-12221

• PubMed: 14581558 
• DOI: 10.1128/jvi.77.22.12211-12221.2003
• Primary Citation of Related Structures:  
  1P5Y, 1P5W


• PubMed Abstract: 
  

Canine parvovirus (CPV) and feline panleukopenia virus (FPV) differ in their ability to infect dogs and dog cells. Canine cell infection is a specific property of CPV and depends on the ability of the virus to bind the canine transferrin receptor (TfR), as well as other unidentified factors. Three regions in the capsid structure, located around VP2 residues 93, 300, and 323, can all influence canine TfR binding and canine cell infection. These regions were compared in the CPV and FPV capsid structures that have been determined, as well as in two new structures of CPV capsids that contain substitutions of the VP2 Asn-93 to Asp and Arg, respectively. The new structures, determined by X-ray crystallography to 3.2 and 3.3 A resolutions, respectively, clearly showed differences in the interactions of residue 93 with an adjacent loop on the capsid surface. Each of the three regions show small differences in structure, but each appears to be structurally independent of the others, and the changes likely act together to affect the ability of the capsid to bind the canine TfR and to infect canine cells. This emphasizes the complex nature of capsid alterations that change the virus-cell interaction to allow infection of cells from different hosts.

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Related Citations: 

• The three-dimensional structure of canine parvovirus and its functional implications
  Tsao, J., Chapman, M.S., Agbandje, M., Keller, W., Smith, K., Wu, H., Luo, M., Smith, T.J., Rossmann, M.G., Compans, R.W., Parrish, C.R.
  (1991) Science 251: 1456

• Structure determination of monoclinic canine parvovirus
  Tsao, J., Chapman, M.S., Wu, H., Agbandje, M., Keller, W., Rossmann, M.G.
  (1992) Acta Crystallogr B 48: 75

• The canine parvovirus empty capsid structure
  Wu, H., Rossmann, M.G.
  (1993) J Mol Biol 233: 231

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Organizational Affiliation: 

Department of Biochemistry and Molecular Biology, Center for Structural Biology, College of Medicine, University of Florida, Gainesville, Florida 32610, USA.

Macromolecules

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Coat protein VP2	A	548	Canine parvovirus	Mutation(s): 1
Find proteins for P17455 (Canine parvovirustype 2 (isolate Dog/United States/CPV-d/1988)) Explore P17455  Go to UniProtKB:  P17455

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(P*(3DR)P*TP*AP*CP*CP*TP*CP*TP*TP*GP*C)-3'	B	11	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	A, B	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.30 Å
• R-Value Free: 0.202 
• R-Value Work: 0.200 
• R-Value Observed: 0.200 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 372.417	α = 90
b = 373.017	β = 90
c = 377.083	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2003-04-28 
• Released Date: 2003-08-26 
Deposition Author(s): Agbandje-McKenna, M., Govindasamy, L.

Revision History  

• Version 1.0: 2003-08-26
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance