SAXSdb — 9ueb

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1. Structure Basics

entry_id	9ueb
deposition_date	2025-04-08
title	Prefusion structure of 2014-422 spike glycoprotein
keywords	2014-422, spike, VIRAL PROTEIN; VIRAL 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	50.48 Å
rg_electron	50.03 Å
i0	2251250000.00
molecular_weight	393190.0 kDa
excluded_volume	490040 Å³
envelope_volume	682550 Å³
shell_volume	110740 Å³
envelope_diameter	162.3 Å
shell_rg	56.00 Å
envelope_rg	49.28 Å
shape_rg	50.04 Å
total_rg	50.16 Å
total_atoms	27649
n_residues	3507
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	161.4 Å
rg_real	50.35 Å
rg_real_error	1.09 Å
i0_real	2.2510e+09
i0_real_error	4.1990e+07
rg_reciprocal	50.58 Å
i0_reciprocal	2252000000.0000
total_estimate	0.8815
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	57.3 Å
skewness	0.221
kurtosis	-0.521
angular_range	— – 0.1550 Å⁻¹
current_alpha	0.0000
highest_alpha	362400000.0000
n_real_points	32
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.913; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.989; Smooth: 0.727

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Spike glycoprotein
formula_weight	141887.9 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	27649

MRLSVCLLMFLLTPIKGDVDSGPPSSATSCKEADMRNSSSEFFNKQWPMPINASKADGIIYPTGKSYSNISLTLQGLFPKHGDLGEQYIYSVGHSDSNYDYLGKLFVSDYATKVVPFNNGFVVRIGAAANATGSVIISTVQKTIKKIYPAFMLGSSVGNFSNGVSGRYFNHTLLLLPDGCGTRLWALYCVIEPRNGSYCPGNSNYNTFAVFDTPHTDCTSAGYNTNATLNSFKEYFDLQNCSFIYSFNITEDENAEWFGITQNTQGVHLYSSRKGDLYGSNMFLFATLPVYDGIKYYTVIPRSIRSKYSERQAWAAFYIYSLHKLTYLLDFSVDGYIRRAVDCGHDDLSQLYCSYESFDVGSGVYSVSSFEVHSRGQFIEQPNSVECDFTKLLSGTPPQVYNFNRLVFTNCNYNLTKLLSLFMVNEFSCDGISPDAIARGCYSSLTVDYFAYPLSMKSYMQPGSAGVISQYNYKQSFANPTCRIFATAPANLTITKPSSYSFISKCSRLTGDNSHIETPIVINPGEYSICKNFAPNGFSQDGDYFTRQLSQLEGGGILVGVGSVTPMTDTLQMGFIISVQYGTDTNSVCPMMDLGNSTTITDKLGVCVEYNLYGVSGRGVFINCTAVGVKQQRFVYDGFDNLIGYYSDDGNYYCVRPCVSVPLSVVYDKTTNSHATIFGSVACEHITTMLHQFSRTTQASLRMRDVSNSGPLQTAVGCVIGLVNSSMVVDNCQLPLGQSLCAVPSTTRSSSQLQLATINYTQPQLLSPLNSSGFVVQVPTNFSFGITQEYIQTTIQKVTVDCKQYVCNGFQKCEQLLREYGQFCAKINQALHGANLMQDESVANLFSDIKTHKSQPLNAGLNGDFNLTLLQVPQVSTSQYSHRSAIEDLLFNKVTIADPGYMQGYDDCMKQGPPSARDLICAQYVAGYKVLPPLYDPNMEGAYTSSLLGSIAGAGWTAGLSSFAAIPFAQSIFYRMNGIGITQQVLSENQKLIANKFNQALGAMQTGFTTTNLAFSKVQDAVNANAQALSKLASELSNTFGAISSSISDILKRLDAVEQEAQIDRLINGRLTSLNAFVAQQLVRSETAARSAQLASDKVNECVKSQSKRNGFCGSGTHIVSFVINAPNGFYFFHVGYVPTNHVNVTAAYGLCNTDTPPRCIAPIDGYFVLNNTTTRDVVDQWYYTGSSFFNPEPITMANARYVSQDVKFENLTNQLPPPLLNNQTDLDFKEELEEFFKNVSSQGPNFQEISKINTTLLDLSTEMKVLNEVVKQLNESYIDLKELGNYS

Source

organism	Middle East respiratory syndrome-related coronavirus
common_name	MERS-CoV
ncbi_taxonomy_id	1335626
host_organism	Trichoplusia ni

Entity 2 branched

description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	424.4 kDa
src_method	man
entity_count	9

Entity 3 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	26

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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	2.59 Å
resolution_method	—
num_particles	346468

fit	/app/data/saxs_computation/ue/9ueb/9ueb.fit
pddf	/app/data/pr_computation/ue/9ueb/9ueb.pr.out
profile	/app/data/saxs_computation/ue/9ueb/9ueb.dat

Prefusion structure of 2014-422 spike glycoprotein

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

EM 3D