2JH8

The structure of bluetongue virus VP4 reveals a multifunctional RNA- capping production-line

• PDB DOI: https://doi.org/10.2210/pdb2JH8/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Bluetongue virus (serotype 10 / American isolate)
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2007-02-21 Released: 2007-04-10 
• Deposition Author(s): Sutton, G., Grimes, J.M., Stuart, D.I., Roy, P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.22 Å
• R-Value Free: 0.341 
• R-Value Work: 0.246 
• R-Value Observed: 0.246 

Literature

Bluetongue Virus Vp4 is an RNA-Capping Assembly Line.

Sutton, G., Grimes, J.M., Stuart, D.I., Roy, P.

(2007) Nat Struct Mol Biol 14: 449

• PubMed: 17417654 
• DOI: https://doi.org/10.1038/nsmb1225
• Primary Citation of Related Structures:  
  2JH8, 2JH9, 2JHA, 2JHC, 2JHP


• PubMed Abstract: 
  

  Eukaryotic organisms cap the 5' ends of their messenger RNAs by a series of four chemical reactions. Some viruses achieve this using a single molecule; the crystal structure of such an enzyme from bluetongue virus reveals an elongated modular architecture that provides a scaffold for an assemblage of active sites, two contributed by a domain of novel structure.

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Organizational Affiliation: 

Division of Structural Biology, The Wellcome Trust Centre for Human Genetics, University of Oxford, Roosevelt Drive, Headington, Oxford, OX3 7BN, UK.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 76.26 kDa 
• Atom Count: 5,091 
• Modelled Residue Count: 613 
• Deposited Residue Count: 644 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
VP4 CORE PROTEIN	A	644	Bluetongue virus (serotype 10 / American isolate)	Mutation(s): 0
UniProt
Find proteins for Q65751 (Bluetongue virus 10) Explore Q65751  Go to UniProtKB:  Q65751

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
M7G	B [auth A]	7N-METHYL-8-HYDROGUANOSINE-5'-DIPHOSPHATE C11 H18 N5 O11 P2 SBASPRRECYVBRF-KQYNXXCUSA-O
GUN	C [auth A], D [auth A]	GUANINE C5 H5 N5 O UYTPUPDQBNUYGX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.22 Å
• R-Value Free: 0.341 
• R-Value Work: 0.246 
• R-Value Observed: 0.246 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.055	α = 90
b = 75.055	β = 90
c = 419.834	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-04-10 
Deposition Author(s): Sutton, G., Grimes, J.M., Stuart, D.I., Roy, P.

Revision History  

• Version 1.0: 2007-04-10
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-10-16
  Changes: Data collection, Other, Source and taxonomy
• Version 2.0: 2024-03-06
  Changes: Data collection, Database references, Non-polymer description, Structure summary