4OTV

Crystal structure of in cellulo Operophtera brumata CPV18

• PDB DOI: https://doi.org/10.2210/pdb4OTV/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Operophtera brumata cypovirus 18
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2014-02-14 Released: 2014-05-14 
• Deposition Author(s): Stuart, D.I., Sutton, G.C., Axford, D., Ji, X.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.179 
• R-Value Work: 0.122 
• R-Value Observed: 0.125 

Literature

In cellulo structure determination of a novel cypovirus polyhedrin.

Axford, D., Ji, X., Stuart, D.I., Sutton, G.

(2014) Acta Crystallogr D Biol Crystallogr 70: 1435-1441

• PubMed: 24816111 
• DOI: https://doi.org/10.1107/S1399004714004714
• Primary Citation of Related Structures:  
  4OTS, 4OTV


• PubMed Abstract: 
  

  This work demonstrates that with the use of a microfocus synchrotron beam the structure of a novel viral polyhedrin could be successfully determined from microcrystals within cells, removing the preparatory step of sample isolation and maintaining a favourable biological environment. The data obtained are of high quality, comparable to that obtained from isolated crystals, and enabled a facile structure determination. A small but significant difference is observed between the unit-cell parameters and the mosaic spread of in cellulo and isolated crystals, suggesting that even these robust crystals are adversely affected by removal from the cell.

---

Organizational Affiliation: 

Diamond Light Source Ltd, Harwell Oxford, Didcot OX11 0DE, England.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content

• Total Structure Weight: 29.44 kDa 
• Atom Count: 2,314 
• Modelled Residue Count: 248 
• Deposited Residue Count: 248 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polyhedrin	A	248	Operophtera brumata cypovirus 18	Mutation(s): 0
UniProt
Find proteins for Q30C70 (Operophtera brumata cypovirus 18) Explore Q30C70  Go to UniProtKB:  Q30C70

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GTP	C [auth A]	GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N
ATP	D [auth A]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
MG	E [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.179 
• R-Value Work: 0.122 
• R-Value Observed: 0.125 
• Space Group: I 2 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.04	α = 90
b = 103.04	β = 90
c = 103.04	γ = 90

Software Package:

Software Name	Purpose
GDA	data collection
PHASER	phasing
PHENIX	refinement
FastDP	data reduction
Blend	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-05-14 
Deposition Author(s): Stuart, D.I., Sutton, G.C., Axford, D., Ji, X.

Revision History  

• Version 1.0: 2014-05-14
  Type: Initial release
  
• Version 1.1: 2014-09-24
  Changes: Database references
• Version 1.2: 2024-02-28
  Changes: Data collection, Database references, Derived calculations