8Z37 | pdb_00008z37

Crystal structure of human STING ligand binding domain.

• PDB DOI: https://doi.org/10.2210/pdb8Z37/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-04-14 Released: 2025-04-16 
• Deposition Author(s): Sun, P.K., Li, X.J.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 
  0.245 (Depositor), 0.244 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.224 (DCC) 
• R-Value Observed: 
  0.221 (Depositor) 

Literature

A sensitive sensor for discovering honokiol as a potent STING activator that enhances antitumor immunity

Sun, P.K., Li, X.J.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 22.35 kDa 
• Atom Count: 1,464 
• Modeled Residue Count: 178 
• Deposited Residue Count: 192 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Stimulator of interferon genes protein	A	192	Homo sapiens	Mutation(s): 0  Gene Names: STING1, ERIS, MITA, STING, TMEM173
UniProt & NIH Common Fund Data Resources
Find proteins for Q86WV6 (Homo sapiens) Explore Q86WV6  Go to UniProtKB:  Q86WV6
PHAROS:  Q86WV6 GTEx:  ENSG00000184584

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
Y4T (Subject of Investigation/LOI)	D [auth A]	(1P)-3',5-di(prop-2-en-1-yl)[1,1'-biphenyl]-2,4'-diol C18 H18 O2 FVYXIJYOAGAUQK-UHFFFAOYSA-N
CA	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.245 (Depositor), 0.244 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.224 (DCC) 
• R-Value Observed: 0.221 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.714	α = 90
b = 89.477	β = 90
c = 72.955	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-04-16 
Deposition Author(s): Sun, P.K., Li, X.J.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	92157104

Revision History  

• Version 1.0: 2025-04-16
  Type: Initial release