8CNL | pdb_00008cnl

Lymphocytic choriomeningitis virus 3'-5' exonuclease domain of nucleoprotein

• PDB DOI: https://doi.org/10.2210/pdb8CNL/pdb

• Classification: VIRAL PROTEIN
• Organism(s): Arenavirus
• Expression System: Escherichia phage T7
• Mutation(s): No 


• Deposited: 2023-02-23 Released: 2024-09-11 
• Deposition Author(s): Spiliopoulou, M., Papageorgiou, N., Ferron, F.
• Funding Organization(s): Hellenic Foundation for Research and Innovation (HFRI), General Secretariat for Research and Technology (GSRT)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.280 (Depositor), 0.278 (DCC) 
• R-Value Work: 
  0.273 (Depositor), 0.275 (DCC) 
• R-Value Observed: 
  0.274 (Depositor) 

Starting Model: experimental

Literature

Lymphocytic choriomeningitis virus 3'-5' exonuclease domain of nucleoprotein

Spiliopoulou, M., Papageorgiou, N., Ferron, F.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 196.69 kDa 
• Atom Count: 12,976 
• Modeled Residue Count: 1,624 
• Deposited Residue Count: 1,744 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleoprotein	A [auth B], B [auth A], C, D, E, F, G, H	218	Arenavirus	Mutation(s): 0  Gene Names: N, Segment S EC: 3.1.13
UniProt
Find proteins for P09992 (Lymphocytic choriomeningitis virus (strain Armstrong)) Explore P09992  Go to UniProtKB:  P09992

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	I [auth B], J [auth A], K [auth C], L [auth D], M [auth E], N [auth F], O [auth G], P [auth H]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.280 (Depositor), 0.278 (DCC) 
• R-Value Work:  0.273 (Depositor), 0.275 (DCC) 
• R-Value Observed: 0.274 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.076	α = 90
b = 95.066	β = 97.54
c = 129.13	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-11 
Deposition Author(s): Spiliopoulou, M., Papageorgiou, N., Ferron, F.

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Funding Organization	Location	Grant Number
Hellenic Foundation for Research and Innovation (HFRI)	Greece	3051
General Secretariat for Research and Technology (GSRT)	European Union	--

Revision History  

• Version 1.0: 2024-09-11
  Type: Initial release