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9qsz

Cryo-EM structure of aquaporin 3 at pH 8.0 with hydrogen peroxide

Method: ELECTRON MICROSCOPY D_max: 83.5 Å Quality: EXCELLENT

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qsz
deposition_date	2025-04-07
title	Cryo-EM structure of aquaporin 3 at pH 8.0 with hydrogen peroxide
keywords	membrane protein, glycerol channel, hydrogen peroxide transport, tetramer; MEMBRANE PROTEIN
method	ELECTRON MICROSCOPY

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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	28.53 Å
rg_electron	27.61 Å
i0	156772000.00
molecular_weight	106840.0 kDa
excluded_volume	136900 Å³
envelope_volume	155590 Å³
shell_volume	44175 Å³
envelope_diameter	82.8 Å
shell_rg	37.14 Å
envelope_rg	27.61 Å
shape_rg	27.65 Å
total_rg	28.43 Å
total_atoms	7556
n_residues	1000
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	83.5 Å
rg_real	28.24 Å
rg_real_error	0.36 Å
i0_real	1.5680e+08
i0_real_error	2.0210e+06
rg_reciprocal	28.33 Å
i0_reciprocal	156800000.0000
total_estimate	0.9069
solution_quality	EXCELLENT a EXCELLENT solution
n_peaks	2
r_peak_primary	38.8 Å
skewness	0.014
kurtosis	-0.578
angular_range	— – 0.2800 Å⁻¹
current_alpha	0.0000
highest_alpha	42810000.0000
n_real_points	57
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.951; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.971; Smooth: 0.961

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Aquaporin-3
formula_weight	32396.5 kDa
src_method	man
entity_count	4

Polymer

type	polypeptide(L)
strand_id	A,B,C,D
atom_count	7568

MGRQKELVSRCGEMLHIRYRLLRQALAECLGTLILVMFGCGSVAQVVLSRGTHGGFLTINLAFGFAVTLGILIAGQVSGAHLNPAVTFAMCFLAREPWIKLPIYTLAQTLGAFLGAGIVFGLYYDAIWHFADNQLFVSGPNGTAGIFATYPSGHLDMINGFFDQFIGTASLIVCVLAIVDPYNNPVPRGLEAFTVGLVVLVIGTSMGFNSGYAVNPARDFGPRLFTALAGWGSAVFTTGQHWWWVPIVSPLLGSIAGVFVYQLMIGCHLEQPPPSNEEENVKLAHVKHKEQIHHHHHH

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Komagataella pastoris

Entity 2 non-polymer

description	HYDROGEN PEROXIDE
formula_weight	34.0 kDa
src_method	syn
entity_count	16

Entity 3 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	12

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6. Citations (1)

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length_a	1.000 Å
length_b	1.000 Å
length_c	1.000 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	—

space_group	P 1
int_tables_number	1
crystal_system	—

resolution	3.000 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	3.00 Å
resolution_method	—
num_particles	450309

fit	/app/data/saxs_computation/qs/9qsz/9qsz.fit
pddf	/app/data/pr_computation/qs/9qsz/9qsz.pr.out
profile	/app/data/saxs_computation/qs/9qsz/9qsz.dat

Cryo-EM structure of aquaporin 3 at pH 8.0 with hydrogen peroxide

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

EM 3D