Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Helical - H  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

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

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 113.95 kDa 
• Atom Count: 7688 
• Residue Count: 954 
• Unique protein chains: 1

6BZH

Structure of mouse RIG-I tandem CARDs

• DOI: 10.2210/pdb6BZH/pdb

• Classification: HYDROLASE
• Organism(s): Mus musculus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-12-24 Released: 2018-01-17 
• Deposition Author(s): Kershaw, N.J., D'Cruz, A.A., Babon, J.J., Nicholson, S.E.
• Funding Organization(s): National Heath and Medical Research Council

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.275 
• R-Value Work: 0.226 
• R-Value Observed: 0.229 

Literature

Identification of a second binding site on the TRIM25 B30.2 domain.

D'Cruz, A.A., Kershaw, N.J., Hayman, T.J., Linossi, E.M., Chiang, J.J., Wang, M.K., Dagley, L.F., Kolesnik, T.B., Zhang, J.G., Masters, S.L., Griffin, M.D.W., Gack, M.U., Murphy, J.M., Nicola, N.A., Babon, J.J., Nicholson, S.E.

(2018) Biochem J 475: 429-440

• PubMed: 29259080 
• DOI: 10.1042/BCJ20170427
• Primary Citation of Related Structures:  
  6BZH


• PubMed Abstract: 
  

The r etinoic acid- i nducible g ene- I (RIG-I) receptor recognizes short 5'-di- and triphosphate base-paired viral RNA and is a critical mediator of the innate immune response against viruses such as influenza A, Ebola, HIV and hepatitis C. This response is reported to require an orchestrated interaction with the tri partite m otif 25 (TRIM25) B30.2 protein-interaction domain. Here, we present a novel second RIG-I-binding interface on the TRIM25 B30.2 domain that interacts with CARD1 and CARD2 ( c aspase a ctivation and r ecruitment d omains) of RIG-I and is revealed by the removal of an N-terminal α-helix that mimics dimerization of the full-length protein. Further characterization of the TRIM25 coiled-coil and B30.2 regions indicated that the B30.2 domains move freely on a flexible tether, facilitating RIG-I CARD recruitment. The identification of a dual binding mode for the TRIM25 B30.2 domain is a first for the SPRY/B30.2 domain family and may be a feature of other SPRY/B30.2 family members.

---

Organizational Affiliation: 

The University of Melbourne, Parkville, Victoria, Australia.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable ATP-dependent RNA helicase DDX58	A, B, C, D, E	194	Mus musculus	Mutation(s): 0  Gene Names: Ddx58 EC: 3.6.4.13
Find proteins for Q6Q899 (Mus musculus) Explore Q6Q899  Go to UniProtKB:  Q6Q899

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	A, B, C	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL	A, D	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.275 
• R-Value Work: 0.226 
• R-Value Observed: 0.229 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 90.19	α = 90
b = 97.56	β = 90
c = 113.29	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SCALA	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2017-12-24 
• Released Date: 2018-01-17 
Deposition Author(s): Kershaw, N.J., D'Cruz, A.A., Babon, J.J., Nicholson, S.E.

---

Funding Organization	Location	Grant Number
National Heath and Medical Research Council	Australia	--

Revision History 

• Version 1.0: 2018-01-17
  Type: Initial release
  
• Version 1.1: 2018-01-31
  Changes: Database references