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9t99

;Structure of C. elegans Dicer-related helicase 1 (DRH1) bound to blunt end 5'P-dsRNA ;

Method: X-RAY DIFFRACTION D_max: 90.6 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9t99
deposition_date	2025-11-14
title	;Structure of C. elegans Dicer-related helicase 1 (DRH1) bound to blunt end 5'P-dsRNA ;
keywords	RIG-I like RNA helicase, Zn-containing C-terminal domain (CTD), RNA BINDING PROTEIN; RNA BINDING PROTEIN
method	X-RAY DIFFRACTION

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Download Data

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

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2. SAXS Parameters (CRYSOL)

rg_guinier	29.51 Å
rg_electron	28.69 Å
i0	167707000.00
molecular_weight	91632.0 kDa
excluded_volume	110310 Å³
envelope_volume	148230 Å³
shell_volume	41816 Å³
envelope_diameter	95.8 Å
shell_rg	36.96 Å
envelope_rg	28.62 Å
shape_rg	28.70 Å
total_rg	29.42 Å
total_atoms	12357
n_residues	735
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

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3. P(r) Analysis (GNOM)

dmax	90.6 Å
rg_real	29.36 Å
rg_real_error	0.62 Å
i0_real	1.6770e+08
i0_real_error	2.6090e+06
rg_reciprocal	29.43 Å
i0_reciprocal	167700000.0000
total_estimate	0.8999
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	35.2 Å
skewness	0.177
kurtosis	-0.455
angular_range	— – 0.2700 Å⁻¹
current_alpha	0.0000
highest_alpha	22070000.0000
n_real_points	55
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.933; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.981; Smooth: 0.914

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	Dicer-related helicase
formula_weight	83006.5 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	12502

GLCLRNYQEELCQVALQGKNTIVTAPTGSGKTVIAANIIKEHFESRSSEGKRFKALFMTPNSMILNQQAASISSYLDHVYHTQIIQGSDNVPTRNVIQSKDLIVATPQMIVNLCNEHRNSLDDESRLDQFFLSTFTIIFFDQCHNTVKNSPYSNIMREYHYLKNMGNMPEGHSLPQIIGLTASLGTGDKNDCLQVRNYIAGLCASMDVKDLSIVKDNLEELRGYSPIVPDKVLLCERSTDGPIGMFTNRLTLMMQEVEGLIRTALRNEHIGIEQRRQIETTERDFRPDSSFLDPPADKEHAGYQNWVCNQMNLVSGTSFRETGTRTIINEALDVLKECFCTLSYNINFHPEVALNYLKDEMEYRTPNFTVNMIRIWERYHNQLVGTGSAENPMISKTVQYIVEQNLQRADSRTIIFVRTRYEATILNKVLNSNEELLMLGIKSEWMSGLNKSTASSADISASKQKQMEKLKMFADGEIRILVSTSVAEEGLDVPECSLVIKYNYATNEIAHVQRRGRGRALNSECVLITNSIALRDQESNNRDKESLMSETISLIQNSPAEFRKCVDEESNKIWPRILREDTDKAQKIEEQINRNIVYKIICKKCEAILCTSKDIRSRNTQYLVCDPGFWSLVRKTRLTDEQQALIKYNATGSINCRRENCGLKLGQLIEVNTVDLPCLSALSIVLLVEGTDKRIIVKKWKNILDKYFTPTEIRQLDVQTMRDADQAR

Source

organism	Caenorhabditis elegans
ncbi_taxonomy_id	6239
host_organism	Escherichia coli

Entity 2 polymer

description	;RNA (5'-R(PGPGPUPAPGPUPCPUPAPCP*C)-3') ;
formula_weight	3483.1 kDa
src_method	syn
entity_count	1

Polymer

type	polyribonucleotide
strand_id	S

GGUAGUCUACC

Entity 3 polymer

description	;RNA (5'-R(PGPGPUPAPGPCPGPCPUPAPCPC)-3') ;
formula_weight	3827.3 kDa
src_method	syn
entity_count	2

Polymer

type	polyribonucleotide
strand_id	X,Y

GGUAGCGCUACC

Entity 4 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	nat
entity_count	1

Entity 5 non-polymer

description	ADENOSINE-5'-DIPHOSPHATE
formula_weight	427.2 kDa
src_method	nat
entity_count	1

Entity 6 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	80

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6. Citations (1)

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length_a	134.354 Å
length_b	134.354 Å
length_c	221.301 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	32

space_group	I 41 2 2
int_tables_number	98
crystal_system	—

resolution	2.180 Å
resolution_low	72.080 Å
r_factor	0.2199
r_work	0.2179
r_free	0.2569

fit	/app/data/saxs_computation/t9/9t99/9t99.fit
pddf	/app/data/pr_computation/t9/9t99/9t99.pr.out
profile	/app/data/saxs_computation/t9/9t99/9t99.dat

;Structure of C. elegans Dicer-related helicase 1 (DRH1) bound to blunt end 5'P-dsRNA ;

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 (6)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Entity 4 non-polymer

Entity 5 non-polymer

Entity 6 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)