Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 62213.27 
• Atom Count: 3974 
• Residue Count: 506 
• Unique protein chains: 1

4ILD

Crystal structure of truncated Bovine viral diarrhea virus 1 E2 envelope protein

• DOI: 10.2210/pdb4ILD/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Bovine viral diarrhea virus (isolate NADL)
• Expression System: Trichoplusia ni


• Deposited: 2012-12-30 Released: 2013-04-10 
• Deposition Author(s): Modis, Y., Li, Y., Wang, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.27 Å
• R-Value Free: 0.289 
• R-Value Work: 0.246 

Literature

Crystal structure of glycoprotein E2 from bovine viral diarrhea virus.

Li, Y., Wang, J., Kanai, R., Modis, Y.

(2013) Proc.Natl.Acad.Sci.USA 110: 6805-6810

• PubMed: 23569276 
• DOI: 10.1073/pnas.1300524110
• Primary Citation of Related Structures:  
  4JNT


• PubMed Abstract: 
  

Pestiviruses, including bovine viral diarrhea virus, are important animal pathogens and are closely related to hepatitis C virus, which remains a major global health threat. They have an outer lipid envelope bearing two glycoproteins, E1 and E2, required for cell entry. They deliver their genome into the host cell cytoplasm by fusion of their envelope with a cellular membrane. The crystal structure of bovine viral diarrhea virus E2 reveals a unique protein architecture consisting of two Ig-like domains followed by an elongated β-stranded domain with a new fold. E2 forms end-to-end homodimers with a conserved C-terminal motif rich in aromatic residues at the contact. A disulfide bond across the interface explains the acid resistance of pestiviruses and their requirement for a redox activation step to initiate fusion. From the structure of E2, we propose alternative possible membrane fusion mechanisms. We expect the pestivirus fusion apparatus to be conserved in hepatitis C virus.

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Organizational Affiliation: 

Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Envelope glycoprotein E2	A, B	253	Bovine viral diarrhea virus (isolate NADL)	Mutation(s): 0
Find proteins for P19711 (Bovine viral diarrhea virus (isolate NADL)) Go to UniProtKB:  P19711

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CA	A, B	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
IUM	B	URANYL (VI) ION O2 U IZLHQJIUOZHTLW-UHFFFAOYSA-N
NAG	A, B	N-ACETYL-D-GLUCOSAMINE C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.27 Å
• R-Value Free: 0.289 
• R-Value Work: 0.246 
• Space Group: C 1 2 1
• Diffraction Data DOI: 
  10.15785/SBGRID/62 SBGrid

Unit Cell:

Length (Å)	Angle (°)
a = 136.720	α = 90.00
b = 54.450	β = 92.23
c = 95.920	γ = 90.00

Software Package:

Software Name	Purpose
MLPHARE	phasing
REFMAC	refinement
PHENIX	phasing
XDS	data scaling
PHENIX	model building
HKL-2000	data collection
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-12-30 
• Released Date: 2013-04-10 
• Deposition Author(s): Modis, Y., Li, Y., Wang, J.

Revision History 

• Version 1.0: 2013-04-10
  Type: Initial release
• Version 1.1: 2013-04-17
  Type: Database references
• Version 1.2: 2013-05-08
  Type: Database references