9lov

LGP2:MDA5:dsRNA filament

Method: ELECTRON MICROSCOPY Dmax: 151.7 Å Quality: GOOD

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

ATP-dependent RNA helicase DHX58

Homo sapiens

UniProt Q96C10

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–RNA Heteromer Protein × 3 RNA 2 PDB declaration: pentameric(5) Consistent with all polymer counts Chain A; UniProt 1–678 Not recorded RNA (45-MER) × 1 RNA (45-MER) × 1 Interferon-induced helicase C domain-containing protein 1 × 2 (Q9BYX4) ADP ADENOSINE-5'-DIPHOSPHATE × 3 ZN ZINC ION × 3 MG MAGNESIUM ION × 3 ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.07 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.

4 other PDB entries and 7 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name DHX58_HUMAN
Isoform
PDB entities 3
Chains and sequence ranges Author chain A; PDBConstruct 1–678; UniProt 1–678

Interferon-induced helicase C domain-containing protein 1

Homo sapiens

UniProt Q9BYX4

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–RNA Heteromer Protein × 3 RNA 2 PDB declaration: pentameric(5) Consistent with all polymer counts Chain B; UniProt 287–1025 Chain C; UniProt 287–1025 Not recorded RNA (45-MER) × 1 RNA (45-MER) × 1 ATP-dependent RNA helicase DHX58 × 1 (Q96C10) ADP ADENOSINE-5'-DIPHOSPHATE × 3 ZN ZINC ION × 3 MG MAGNESIUM ION × 3 ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.07 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.

8 other PDB entries and 9 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name IFIH1_HUMAN
Isoform
PDB entities 4
Chains and sequence ranges Author chain B; PDBConstruct 1–739; UniProt 287–1025 Author chain C; PDBConstruct 1–739; UniProt 287–1025

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 9lov

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id9lov
Deposition date deposition_date2025-01-23
Structure title titleLGP2:MDA5:dsRNA filament
Keywords keywordsInnate immune system, RNA receptor, Cryo-EM, Filament, IMMUNE SYSTEM, IMMUNE SYSTEM-RNA complex; IMMUNE SYSTEM/RNA
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier44.74
Radius of gyration Rg (electron density) rg_electron45.03
Forward intensity I(0) i01149940000.00
Molecular weight molecular_weight258440.0 kDa
Excluded volume excluded_volume314660 ų
Envelope volume envelope_volume438470 ų
Hydration-shell volume shell_volume80912 ų
Envelope diameter envelope_diameter155.7
Shell Rg shell_rg49.64
Envelope Rg envelope_rg44.35
Shape Rg shape_rg45.05
Total Rg total_rg45.16
Total atoms total_atoms17978
Residues n_residues2080
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 dmax151.7
Rg (real space) rg_real44.87
Rg uncertainty (real space) rg_real_error1.37
I(0) (real space) i0_real1.1500e+09
I(0) uncertainty (real space) i0_real_error2.1140e+07
Rg (reciprocal space) rg_reciprocal44.75
I(0) (reciprocal space) i0_reciprocal1150000000.0000
Solution quality estimate total_estimate0.8618
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary47.7
Skewness Skewness skewness0.440
Kurtosis Kurtosis kurtosis-0.394
Angular range angular_range— – 0.1750 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha299400000.0000
Real-space data points n_real_points36
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.782; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.970; Smooth: 0.882

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (7)

8. Citations (1)

9. Files and Curves (10)