9dat

STING oligomer bound to PI(3,5)P2

Method: ELECTRON MICROSCOPY Dmax: 107.8 Å Quality: REASONABLE

1. Protein Identity and Related Structures Protein Identity & Related Structures

Stimulator of interferon genes protein

Homo sapiens

UniProt Q86WV6

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 1–344 Chain B; UniProt 1–344 Chain C; UniProt 1–344 Chain D; UniProt 1–344 Not recorded Y6H 4-({[4-(2-tert-butyl-5,5-dimethyl-1,3-dioxan-2-yl)phenyl]methyl}amino)-3-methoxybenzoic acid × 2 A1BBH (2R)-3-{[(R)-hydroxy{[(1S,2R,3R,4S,5S,6R)-2,4,6-trihydroxy-3,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl di[(9Z)-octadec-9-enoate] × 2 Y01 CHOLESTEROL HEMISUCCINATE × 2 1SY cGAMP × 2 ELECTRON MICROSCOPY cryo-EM buffer:pH 7.4 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 2.90 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

84 other PDB entries and 90 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name STING_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–344; UniProt 1–344 Author chain B; PDBConstruct 1–344; UniProt 1–344 Author chain C; PDBConstruct 1–344; UniProt 1–344 Author chain D; PDBConstruct 1–344; UniProt 1–344

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 9dat

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9dat
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9dat
Deposition date deposition_date2024-08-22
Structure title titleSTING oligomer bound to PI(3,5)P2
Keywords keywordsSTING, lipid, oligomerization, SIGNALING PROTEIN, SIGNALING PROTEIN-ACTIVATOR complex; SIGNALING PROTEIN/ACTIVATOR
Experimental Method methodELECTRON MICROSCOPY

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier34.61
Radius of gyration Rg (electron density) rg_electron34.14
Forward intensity I(0) i0314861000.00
Molecular weight molecular_weight147040.0 kDa
Excluded volume excluded_volume185800 ų
Envelope volume envelope_volume236970 ų
Hydration-shell volume shell_volume56222 ų
Envelope diameter envelope_diameter114.1
Shell Rg shell_rg42.09
Envelope Rg envelope_rg33.66
Shape Rg shape_rg34.15
Total Rg total_rg34.66
Total atoms total_atoms20774
Residues n_residues1272
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax107.8
Rg (real space) rg_real34.44
Rg uncertainty (real space) rg_real_error0.61
I(0) (real space) i0_real3.1490e+08
I(0) uncertainty (real space) i0_real_error4.6320e+06
Rg (reciprocal space) rg_reciprocal34.55
I(0) (reciprocal space) i0_reciprocal314900000.0000
Solution quality estimate total_estimate0.6761
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary44.5
Skewness Skewness skewness0.157
Kurtosis Kurtosis kurtosis-0.452
Angular range angular_range— – 0.2300 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha65640000.0000
Real-space data points n_real_points47
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.919; Stabil: 1.000; Sysdev: 0.038; Positv: 1.000; Valcen: 0.978; Smooth: 0.936

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

8. Citations (1)

9. Files and Curves (10)