7X9P | pdb_00007x9p

Crystal structure of human STING complexed with compound BSP17

• PDB DOI: https://doi.org/10.2210/pdb7X9P/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-03-15 Released: 2023-03-22 
• Deposition Author(s): Pan, L., Guan, X., Feng, X., Li, Z., Bian, J.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.279 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.248 (Depositor), 0.250 (DCC) 
• R-Value Observed: 
  0.249 (Depositor) 

Starting Model: experimental

Literature

Discovery of Selenium-containing STING agonists as orally available anti tumor agents

Feng, X., Pan, L., Qiang, Z., Liu, D., Guan, X., Feng, L., Song, B., Xu, X., Tan, N., Ma, Y., Li, Z., Wang, Z., BIan, 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: 26.71 kDa 
• Atom Count: 1,380 
• Modeled Residue Count: 177 
• Deposited Residue Count: 230 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Stimulator of interferon genes protein	A	230	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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
A8A (Subject of Investigation/LOI)	B [auth A]	4-[6-methoxy-5-[3-[[6-methoxy-2-(4-oxidanyl-4-oxidanylidene-butanoyl)-1-benzoselenophen-5-yl]oxy]propoxy]-1-benzoselenophen-2-yl]-4-oxidanylidene-butanoic acid C29 H28 O10 Se2 IYWSPLCFUFZLKK-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.279 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.248 (Depositor), 0.250 (DCC) 
• R-Value Observed: 0.249 (Depositor) 

Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 33.321	α = 90
b = 53.983	β = 98.55
c = 100.013	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-22 
Deposition Author(s): Pan, L., Guan, X., Feng, X., Li, Z., Bian, J.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31860245
National Natural Science Foundation of China (NSFC)	China	31960203
National Natural Science Foundation of China (NSFC)	China	82073702
National Natural Science Foundation of China (NSFC)	China	32070387
National Natural Science Foundation of China (NSFC)	China	81872746

Revision History  

• Version 1.0: 2023-03-22
  Type: Initial release
  
• Version 1.1: 2023-11-15
  Changes: Data collection
• Version 1.2: 2023-11-29
  Changes: Refinement description