4ILD

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

• PDB DOI: https://doi.org/10.2210/pdb4ILD/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Bovine viral diarrhea virus 1-NADL
• Expression System: Trichoplusia ni
• Mutation(s): No 


• 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 
• R-Value Observed: 0.248 

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 62.07 kDa 
• Atom Count: 3,974 
• Modelled Residue Count: 472 
• Deposited Residue Count: 506 
• Unique protein chains: 1

Macromolecules

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

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	C, D, E, F, G, H, I, J	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IUM	O [auth B], P [auth B], Q [auth B], R [auth B]	URANYL (VI) ION O2 U IZLHQJIUOZHTLW-UHFFFAOYSA-N
CA	K [auth A], L [auth A], M [auth A], N [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.27 Å
• R-Value Free: 0.289 
• R-Value Work: 0.246 
• R-Value Observed: 0.248 
• Space Group: C 1 2 1
• Diffraction Data: https://doi.org/10.15785/SBGRID/62

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 136.72	α = 90
b = 54.45	β = 92.23
c = 95.92	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• 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
  Changes: Database references
• Version 1.2: 2013-05-08
  Changes: Database references
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary