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9qw6

Urate Oxidase from Aspergillus Flavus with its Substrate Uric Acid by continuous serial electron diffraction (SerialED)

Method: ELECTRON CRYSTALLOGRAPHY D_max: 81.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9qw6
deposition_date	2025-04-14
last_revision	2026-04-29
title	Urate Oxidase from Aspergillus Flavus with its Substrate Uric Acid by continuous serial electron diffraction (SerialED)
keywords	serial electron diffraction, SerialED, UOX, UA, Oxidase, OXIDOREDUCTASE; OXIDOREDUCTASE
method	ELECTRON CRYSTALLOGRAPHY

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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	24.48 Å
rg_electron	23.83 Å
i0	20029000.00
molecular_weight	33548.0 kDa
excluded_volume	41803 Å³
envelope_volume	54454 Å³
shell_volume	20051 Å³
envelope_diameter	83.7 Å
shell_rg	29.65 Å
envelope_rg	24.36 Å
shape_rg	23.85 Å
total_rg	24.53 Å
total_atoms	4683
n_residues	296
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	81.3 Å
rg_real	24.58 Å
rg_real_error	0.65 Å
i0_real	2.0030e+07
i0_real_error	3.0200e+05
rg_reciprocal	24.56 Å
i0_reciprocal	20030000.0000
total_estimate	0.8846
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	24.5 Å
skewness	0.382
kurtosis	-0.422
angular_range	— – 0.3250 Å⁻¹
current_alpha	0.0000
highest_alpha	2948000.0000
n_real_points	64
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.897; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.857; Smooth: 0.950

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4. Crystallography & Experiment

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5. Entities & Polymer Info (4)

Entity 1 polymer

description	Uricase
formula_weight	34288.7 kDa
ec_number	1.7.3.3
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	5518

MSAVKAARYGKDNVRVYKVHKDEKTGVQTVYEMTVCVLLEGEIETSYTKADNSVIVATDSIKNTIYITAKQNPVTPPELFGSILGTHFIEKYNHIHAAHVNIVCHRWTRMDIDGKPHPHSFIRDSEEKRNVQVDVVEGKGIDIKSSLSGLTVLKSTNSQFWGFLRDEYTTLKETWDRILSTDVDATWQWKNFSGLQEVRSHVPKFDATWATAREVTLKTFAEDNSASVQATMYKMAEQILARQQLIETVEYSLPNKHYFEIDLSWHKGLQNTGKNAEVFAPQSDPNGLIKCTVGRSSLKSKL

Source

organism	Aspergillus flavus
ncbi_taxonomy_id	5059
host_organism	Escherichia coli

Entity 2 non-polymer

description	OXYGEN MOLECULE
formula_weight	32.0 kDa
src_method	syn
entity_count	1

Entity 3 non-polymer

description	URIC ACID
formula_weight	168.1 kDa
src_method	syn
entity_count	1

Entity 4 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	340

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6. Citations (1)

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length_a	80.130 Å
length_b	94.440 Å
length_c	103.970 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

space_group	I 2 2 2
int_tables_number	23
crystal_system	orthorhombic

resolution	1.750 Å
resolution_low	17.480 Å
r_factor	0.2211
r_work	0.2205
r_free	0.2429

resolution	1.75 Å
resolution_method	—
num_particles	—

fit	/app/data/saxs_computation/qw/9qw6/9qw6.fit
pddf	/app/data/pr_computation/qw/9qw6/9qw6.pr.out
profile	/app/data/saxs_computation/qw/9qw6/9qw6.dat

Urate Oxidase from Aspergillus Flavus with its Substrate Uric Acid by continuous serial electron diffraction (SerialED)

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