← Back to search

9tkv

;Structure of duck RIG-I (delta CARDS) bound to 31-mer RNA mismatched hairpin with 5'pppG-C blunt end, mimicking the influenza B virus vRNA promoter (panhandle). ;

Method: X-RAY DIFFRACTION D_max: 83.8 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

▼

1. Structure Basics

entry_id	9tkv
deposition_date	2025-12-10
last_revision	2025-12-31
title	;Structure of duck RIG-I (delta CARDS) bound to 31-mer RNA mismatched hairpin with 5'pppG-C blunt end, mimicking the influenza B virus vRNA promoter (panhandle). ;
keywords	RNA helicase, RNA BINDING PROTEIN; RNA BINDING PROTEIN
method	X-RAY DIFFRACTION

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	27.94 Å
rg_electron	27.47 Å
i0	147167000.00
molecular_weight	87698.0 kDa
excluded_volume	106470 Å³
envelope_volume	135130 Å³
shell_volume	39664 Å³
envelope_diameter	89.5 Å
shell_rg	35.92 Å
envelope_rg	27.36 Å
shape_rg	27.51 Å
total_rg	28.13 Å
total_atoms	6094
n_residues	704
n_harmonics	20
q_range	— – 0.5000 Å⁻¹
n_points	101
shell_type	directional
solvent_density	0.3340 e/Å³
contrast_shell	0.0300 e/Å³
crysol_version	4.1.3

▼

3. P(r) Analysis (GNOM)

dmax	83.8 Å
rg_real	27.76 Å
rg_real_error	0.42 Å
i0_real	1.4720e+08
i0_real_error	2.1000e+06
rg_reciprocal	27.82 Å
i0_reciprocal	147200000.0000
total_estimate	0.9077
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	33.8 Å
skewness	0.163
kurtosis	-0.481
angular_range	— – 0.2850 Å⁻¹
current_alpha	0.0000
highest_alpha	21800000.0000
n_real_points	58
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.952; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.983; Smooth: 0.958

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (9)

Entity 1 polymer

description	RNA helicase
formula_weight	79359.1 kDa
ec_number	3.6.4.13
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	7313

ETKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIHNLQMKERVLRDSRRKEIKPKVVEGQKNLLCGKCKAYACSTDDIRIIKDSHHIVLGEAFKERYTTKPHKKPMQFDGFEKKSKMYCRNNNCQHDWGITVKYLTFDNLPVIKIKSFVMESTATGTQMDFQKWKSINSSLKNFDVEEMSNLYPPF

Source

organism	Anas platyrhynchos
common_name	mallard
ncbi_taxonomy_id	8839
host_organism	Spodoptera frugiperda

Entity 2 polymer

description	;31-mer RNA hairpin with 5'pppG-C blunt end mimicking the influenza B virus vRNA promoter (panhandle) ;
formula_weight	9613.8 kDa
src_method	syn
entity_count	1

Polymer

type	polyribonucleotide
strand_id	R

GUAGUAACAAGAGGAAACUCUGCUUCUGCC

Entity 3 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	1

Entity 4 non-polymer

description	MAGNESIUM ION
formula_weight	24.3 kDa
src_method	syn
entity_count	3

Entity 5 non-polymer

description	CHLORIDE ION
formula_weight	35.5 kDa
src_method	syn
entity_count	1

Entity 6 non-polymer

description	POTASSIUM ION
formula_weight	39.1 kDa
src_method	syn
entity_count	1

Entity 7 non-polymer

description	GLYCEROL
formula_weight	92.1 kDa
src_method	syn
entity_count	1

Entity 8 non-polymer

description	GUANOSINE-5'-TRIPHOSPHATE
formula_weight	523.2 kDa
src_method	syn
entity_count	1

Entity 9 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	598

▶

6. Citations (1)

▶

length_a	87.641 Å
length_b	100.072 Å
length_c	192.287 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	C 2 2 21
int_tables_number	20
crystal_system	—

resolution	1.488 Å
resolution_low	96.144 Å
r_factor	—
r_work	0.1472
r_free	0.1914

fit	/app/data/saxs_computation/tk/9tkv/9tkv.fit
pddf	/app/data/pr_computation/tk/9tkv/9tkv.pr.out
profile	/app/data/saxs_computation/tk/9tkv/9tkv.dat

;Structure of duck RIG-I (delta CARDS) bound to 31-mer RNA mismatched hairpin with 5'pppG-C blunt end, mimicking the influenza B virus vRNA promoter (panhandle). ;

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

Unit Cell

Symmetry

Refinement

Diffraction

5. Entities & Polymer Info (9)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Entity 3 non-polymer

Entity 4 non-polymer

Entity 5 non-polymer

Entity 6 non-polymer

Entity 7 non-polymer

Entity 8 non-polymer

Entity 9 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)