Crystal structure of GSDME

Method: X-RAY DIFFRACTION D_max: 93.4 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9uxv
deposition_date	2025-05-14
last_revision	2026-05-27
title	Crystal structure of GSDME
keywords	Cell Death, GSDME, Pyroptosis, IMMUNE SYSTEM; IMMUNE SYSTEM
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	30.90 Å
rg_electron	29.93 Å
i0	107167000.00
molecular_weight	83852.0 kDa
excluded_volume	106320 Å³
envelope_volume	142480 Å³
shell_volume	38735 Å³
envelope_diameter	93.8 Å
shell_rg	38.02 Å
envelope_rg	29.22 Å
shape_rg	29.94 Å
total_rg	30.73 Å
total_atoms	5881
n_residues	759
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	93.4 Å
rg_real	30.70 Å
rg_real_error	0.69 Å
i0_real	1.0720e+08
i0_real_error	1.6420e+06
rg_reciprocal	30.78 Å
i0_reciprocal	107200000.0000
total_estimate	0.9116
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	1
r_peak_primary	42.1 Å
skewness	0.058
kurtosis	-0.645
angular_range	— – 0.2550 Å⁻¹
current_alpha	0.0000
highest_alpha	31570000.0000
n_real_points	52
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.962; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.965

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4. Crystallography & Experiment

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5. Entities & Polymer Info (1)

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6. Citations (1)

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length_a	78.450 Å
length_b	78.450 Å
length_c	353.800 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	16

space_group	P 43 21 2
int_tables_number	96
crystal_system	tetragonal

resolution	2.950 Å
resolution_low	46.990 Å
r_factor	0.2379
r_work	0.2359
r_free	0.2743

description	Gasdermin-E, N-terminal,Gasdermin-D, N-terminal,Gasdermin-D, p40,Deafness, autosomal dominant 5
formula_weight	51882.4 kDa
src_method	man
entity_count	2

type	polypeptide(L)
strand_id	A,B
atom_count	5881

Crystal structure of GSDME

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 (1)

Entity 1 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)

organism	Danio rerio
common_name	zebrafish
ncbi_taxonomy_id	7955
host_organism	Escherichia coli

fit	/app/data/saxs_computation/ux/9uxv/9uxv.fit
pddf	/app/data/pr_computation/ux/9uxv/9uxv.pr.out
profile	/app/data/saxs_computation/ux/9uxv/9uxv.dat