5GRM | pdb_00005grm

Crystal structure of rat STING in complex with cyclic GMP-AMP with 2'5'and 3'5'phosphodiester linkage(2'3'-cGAMP)

• PDB DOI: https://doi.org/10.2210/pdb5GRM/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-08-11 Released: 2017-10-25 
• Deposition Author(s): Zhang, H., Han, M.J., Tao, J.L., Ye, Z.Y., Du, X.X., Deng, M.J., Zhang, X.Y., Li, L.F., Jiang, Z.F., Su, X.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 
  0.193 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.181 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.181 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of rat STING in complex with cyclic GMP-AMP with 2'5'and 3'5'phosphodiester linkage(2'3'-cGAMP)

Zhang, H., Han, M.J., Tao, J.L., Ye, Z.Y., Du, X.X., Deng, M.J., Zhang, X.Y., Li, L.F., Jiang, Z.F., Su, X.D.

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)

Macromolecule Content

• Total Structure Weight: 48.55 kDa 
• Atom Count: 3,473 
• Modelled Residue Count: 378 
• Deposited Residue Count: 420 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Stimulator of interferon genes protein	A, B	210	Rattus norvegicus	Mutation(s): 0  Gene Names: Tmem173, Sting
UniProt
Find proteins for F1M391 (Rattus norvegicus) Explore F1M391  Go to UniProtKB:  F1M391

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
1SY	C [auth B]	cGAMP C20 H24 N10 O13 P2 XRILCFTWUCUKJR-INFSMZHSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free:  0.193 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.181 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.181 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.2	α = 90
b = 77.2	β = 90
c = 152.1	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-10-25 
Deposition Author(s): Zhang, H., Han, M.J., Tao, J.L., Ye, Z.Y., Du, X.X., Deng, M.J., Zhang, X.Y., Li, L.F., Jiang, Z.F., Su, X.D.

Revision History  

• Version 1.0: 2017-10-25
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Refinement description, Structure summary