Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Dihedral - D3  (3D View)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 122.63 kDa 
• Atom Count: 6679 
• Modelled Residue Count: 867 
• Deposited Residue Count: 1116 
• Unique protein chains: 1

3UN9

Crystal structure of an immune receptor

• PDB DOI: 10.2210/pdb3UN9/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2011-11-15 Released: 2012-03-28 
• Deposition Author(s): Hong, M., Yoon, S.I., Wilson, I.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.267 
• R-Value Work: 0.223 
• R-Value Observed: 0.226 

Literature

Structure and Functional Characterization of the RNA-Binding Element of the NLRX1 Innate Immune Modulator.

Hong, M., Yoon, S.I., Wilson, I.A.

(2012) Immunity 36: 337-347

• PubMed: 22386589 
• DOI: 10.1016/j.immuni.2011.12.018
• Primary Citation of Related Structures:  
  3UN9


• PubMed Abstract: 
  

Mitochondrial NLRX1 is a member of the family of nucleotide-binding domain and leucine-rich-repeat-containing proteins (NLRs) that mediate host innate immunity as intracellular surveillance sensors against common molecular patterns of invading pathogens. NLRX1 functions in antiviral immunity, but the molecular mechanism of its ligand-induced activation is largely unknown. The crystal structure of the C-terminal fragment (residues 629-975) of human NLRX1 (cNLRX1) at 2.65 Å resolution reveals that cNLRX1 consists of an N-terminal helical (LRRNT) domain, central leucine-rich repeat modules (LRRM), and a C-terminal three-helix bundle (LRRCT). cNLRX1 assembles into a compact hexameric architecture that is stabilized by intersubunit and interdomain interactions of LRRNT and LRRCT in the trimer and dimer components of the hexamer, respectively. Furthermore, we find that cNLRX1 interacts directly with RNA and supports a role for NLRX1 in recognition of intracellular viral RNA in antiviral immunity.

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Organizational Affiliation: 

Department of Molecular Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NLR family member X1	A, B, C	372	Homo sapiens	Mutation(s): 0  Gene Names: NLRX1, NOD26, NOD5, NOD9
UniProt & NIH Common Fund Data Resources
Find proteins for Q86UT6 (Homo sapiens) Explore Q86UT6  Go to UniProtKB:  Q86UT6
PHAROS:  Q86UT6

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PT	D [auth A], E [auth A], F [auth B], G [auth C]	PLATINUM (II) ION Pt HRGDZIGMBDGFTC-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.65 Å
• R-Value Free: 0.267 
• R-Value Work: 0.223 
• R-Value Observed: 0.226 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 99.011	α = 90
b = 123.469	β = 90
c = 145.848	γ = 90

Software Package:

Software Name	Purpose
Blu-Ice	data collection
SOLVE	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-11-15 
• Released Date: 2012-03-28 
Deposition Author(s): Hong, M., Yoon, S.I., Wilson, I.A.

Revision History  

• Version 1.0: 2012-03-28
  Type: Initial release
  
• Version 1.1: 2012-04-18
  Changes: Database references