SAXSdb — 9s19

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1. Structure Basics

entry_id	9s19
deposition_date	2025-07-18
last_revision	2026-05-27
title	WRN helicase in complex with ATPgS and ssDNA
keywords	Inhibitor, Covalent, Helicase, allosteric, HYDROLASE; HYDROLASE
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	30.63 Å
rg_electron	30.15 Å
i0	164769000.00
molecular_weight	97974.0 kDa
excluded_volume	121000 Å³
envelope_volume	148180 Å³
shell_volume	40232 Å³
envelope_diameter	107.1 Å
shell_rg	37.87 Å
envelope_rg	30.22 Å
shape_rg	30.16 Å
total_rg	30.76 Å
total_atoms	6818
n_residues	824
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	101.2 Å
rg_real	30.57 Å
rg_real_error	0.66 Å
i0_real	1.6480e+08
i0_real_error	2.2650e+06
rg_reciprocal	30.60 Å
i0_reciprocal	164800000.0000
total_estimate	0.8935
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	33.1 Å
skewness	0.270
kurtosis	-0.495
angular_range	— – 0.2600 Å⁻¹
current_alpha	0.0000
highest_alpha	58080000.0000
n_real_points	53
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.879; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.992; Smooth: 0.981

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4. Crystallography & Experiment

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5. Entities & Polymer Info (7)

Entity 1 polymer

description	;Bifunctional 3'-5' exonuclease/ATP-dependent helicase WRN ;
formula_weight	48597.1 kDa
ec_number	3.1.-.-,5.6.2.4
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,B
atom_count	7010

GMNEGEEDDDKDFLWPAPNEEQVTCLKMYFGHSSFKPVQWKVIHSVLEERRDNVAVMATGYGKSLCFQYPPVYVGKIGLVISPLISLMEDQVLQLKMSNIPACFLGSAQSENVLTDIKLGKYRIVYVTPEYCSGNMGLLQQLEADIGITLIAVDEAHCISEWGHDFRDSFRKLGSLKTALPMVPIVALTATASSSIREDIVRCLNLRNPQITCTGFDRPNLYLEVRRKTGNILQDLQPFLVKTSSHWEFEGPTIIYCPSRKMTQQVTGELRKLNLSCGTYHAGMSFSTRKDIHHRFVRDEIQCVIATIAFGMGINKADIRQVIHYGAPKDMESYYQEIGRAGRDGLQSSCHVLWAPADINLNRHLLTEIRNEKFRLYKLKMMAKMEKYLHSSRCRRQIILSHFEDKQVQKASLGIMGTEKCCDNCRS

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Spodoptera frugiperda

Entity 2 polymer

description	;DNA (5'-D(PTPAPCPCP*C)-3') ;
formula_weight	4576.0 kDa
src_method	syn
entity_count	2

Polymer

type	polydeoxyribonucleotide
strand_id	C,D

CGTACCCGATGTGTT

Entity 3 non-polymer

description	ZINC ION
formula_weight	65.4 kDa
src_method	syn
entity_count	2

Entity 4 non-polymer

description	PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER
formula_weight	523.2 kDa
src_method	syn
entity_count	2

Entity 5 non-polymer

description	1,2-ETHANEDIOL
formula_weight	62.1 kDa
src_method	syn
entity_count	11

Entity 6 non-polymer

description	DIMETHYL SULFOXIDE
formula_weight	78.1 kDa
src_method	syn
entity_count	2

Entity 7 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	178

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6. Citations (1)

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length_a	62.420 Å
length_b	70.550 Å
length_c	123.470 Å
angle_alpha	90.00 °
angle_beta	94.90 °
angle_gamma	90.00 °
z_pdb	4

space_group	P 1 21 1
int_tables_number	4
crystal_system	—

resolution	2.300 Å
resolution_low	123.020 Å
r_factor	0.2295
r_work	0.2282
r_free	0.2565

fit	/app/data/saxs_computation/s1/9s19/9s19.fit
pddf	/app/data/pr_computation/s1/9s19/9s19.pr.out
profile	/app/data/saxs_computation/s1/9s19/9s19.dat

WRN helicase in complex with ATPgS and ssDNA

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 (7)

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 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)