3V7O | pdb_00003v7o

Crystal structure of the C-terminal domain of Ebola virus VP30 (strain Reston-89)

• PDB DOI: https://doi.org/10.2210/pdb3V7O/pdb

• Classification: TRANSCRIPTION
• Organism(s): Reston ebolavirus - Reston (1989)
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-12-21 Released: 2012-02-08 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 
  0.226 (Depositor), 0.228 (DCC) 
• R-Value Work: 
  0.193 (Depositor), 0.196 (DCC) 
• R-Value Observed: 
  0.195 (Depositor) 

Starting Model: experimental

Literature

Structure of the Reston ebolavirus VP30 C-terminal domain.

Clifton, M.C., Kirchdoerfer, R.N., Atkins, K., Abendroth, J., Raymond, A., Grice, R., Barnes, S., Moen, S., Lorimer, D., Edwards, T.E., Myler, P.J., Saphire, E.O.

(2014) Acta Crystallogr Sect F Struct Biol Cryst Commun 70: 457-460

• PubMed: 24699737 
• DOI: https://doi.org/10.1107/S2053230X14003811
• Primary Citation Related Structures: 
  3V7O


• PubMed Abstract: 
  

  The ebolaviruses can cause severe hemorrhagic fever. Essential to the ebolavirus life cycle is the protein VP30, which serves as a transcriptional cofactor. Here, the crystal structure of the C-terminal, NP-binding domain of VP30 from Reston ebolavirus is presented. Reston VP30 and Ebola VP30 both form homodimers, but the dimeric interfaces are rotated relative to each other, suggesting subtle inherent differences or flexibility in the dimeric interface.

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Organizational Affiliation: 
• Seattle Structural Genomics Center for Infectious Disease (SSGCID), 307 Westlake Avenue North, Suite 500, Seattle, WA 98109, USA.
Department of Immunology and Microbial Science, The Scripps Research Institute, 10550 North Torrey Pines Road, IMM-21, La Jolla, CA 92037, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 51.69 kDa 
• Atom Count: 2,715 
• Modeled Residue Count: 329 
• Deposited Residue Count: 454 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Minor nucleoprotein VP30	A, B	227	Reston ebolavirus - Reston (1989)	Mutation(s): 0  Gene Names: VP30
UniProt
Find proteins for Q8JPX6 (Reston ebolavirus (strain Reston-89)) Explore Q8JPX6  Go to UniProtKB:  Q8JPX6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	C [auth A], D [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free:  0.226 (Depositor), 0.228 (DCC) 
• R-Value Work:  0.193 (Depositor), 0.196 (DCC) 
• R-Value Observed: 0.195 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M33V7O

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.31	α = 90
b = 93.74	β = 90
c = 111.22	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-02-08 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2012-02-08
  Type: Initial release
  
• Version 1.1: 2014-05-14
  Changes: Database references
• Version 1.2: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.3: 2025-10-22
  Changes: Structure summary