SAXSdb — 9uea

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1. Structure Basics

entry_id	9uea
deposition_date	2025-04-08
title	Prefusion structure of GX2012 spike glycoprotein
keywords	GX2012, 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	51.21 Å
rg_electron	50.82 Å
i0	2211690000.00
molecular_weight	393140.0 kDa
excluded_volume	491400 Å³
envelope_volume	691590 Å³
shell_volume	110910 Å³
envelope_diameter	161.8 Å
shell_rg	56.11 Å
envelope_rg	50.12 Å
shape_rg	50.83 Å
total_rg	50.95 Å
total_atoms	27661
n_residues	3509
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	163.4 Å
rg_real	51.08 Å
rg_real_error	1.08 Å
i0_real	2.2120e+09
i0_real_error	3.9920e+07
rg_reciprocal	51.31 Å
i0_reciprocal	2212000000.0000
total_estimate	0.8855
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	58.0 Å
skewness	0.210
kurtosis	-0.561
angular_range	— – 0.1550 Å⁻¹
current_alpha	0.0000
highest_alpha	359400000.0000
n_real_points	32
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.922; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.992; Smooth: 0.748

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Spike glycoprotein
formula_weight	132155.0 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	27662

QFVDMSPASNNSECLDSQVDAAAFSKLMRPYPIDPAKVDGIIYPLGRTYSNITLAYTGLFPLQGDLGTQYLYSASHAVGNDGDPTKAYISNYSLLVNDFDNGFVVRVGAAANSTGTIVISPSVQTKIKKAYPAFILGSSLTNTSAGQPLYANYSLTIIPDGCGTVLHAFYCILKPRTGNRCPGGSGYNAYFIYETIHNDCNSAINKNASLNSFKSFFDLVNCTFFNSWDITADEVKEWFGITQDTQGVHLYSSRKGDLYGGNMFRFATLPVYEGIKYYTVIPRSFRSKANRREAWAAFYVYKLHQLTYLLDFSVDGYIRRTIDCGHDDLSQLHCSYTSFEVDTGVYSVSSYEASAIGTFIEQPNATECDFSPMFKGVAPQVYNFKRLVFSNCNYNLTKLLSLFAVDEFSCNGISPDAIARGCYSTLTVDYFAYPLSMKSYIRPGSAGNIPLYNYKQSFAHPTCRVLASVPPNVTITKPEAYGYISKCSRLTGDYQHIETPLYINPGEYSICRDFAPLGFSEDGQVFKRTLTQFEGGGLLIGVGTRVPMTANLEMGFVISVQYGAGTDSVCPMLDLGESSTITNRLGKCVDYSLYGVTGRGVFQNCTAVGVKQQRFVYDSFDNLVGYYSDDGNYYCVRPCVSVPVSVIYDKSTNLHATLFGSVACEHVTTMMSQFSRLTQSNLRRRDSNAPLQTAVGCVIGLSNNSLVVSECKLPLGQSLCAVPSVSLFRSYSASQFQLAVLNYTSPIVLTPINSSGFTAAIPTNFSFSVTQEYIETSIQKVTVDCKQYVCNGFTRCEKLLVEYGQFCSKINQALHGANLRQDESVYSLYSNIKTTSTQTLEYGLNGDFNLTLLQVPQIGGSPSGYRSAIEDLLFDKVTIADPGYMQGYDDCMKQGPQSARDLICAQYVSGYKVLPPLYDPNMEAAYTSSLLGSIAGAGWTAGLSSFAAIPFAQSMFYRLNGVGITQQVLSENQKLIANKFNQALGAMQTGFTTSNQAFSKVQDAVNANAQALSKLASELSNTFGAISSSISDILARLDTAEQDAQIDRLINGRLTSLNAFVSQQLVRSETAARSAQLASDKVNECVKSQSKRNGFCGSGTHIVSFVVNAPNGFYFFHVGYVPTNYTNVTAAYGLCNNNNPPLCIAPIDGYFITNQTTTYSVDTEWYYTGSSFFKPEPITQANSRYVSSDVKFEKLENNLPPPLLE

Source

organism	BtTp-BetaCoV/GX2012
ncbi_taxonomy_id	1503304
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	5

Entity 3 branched

description	alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	570.5 kDa
src_method	man
entity_count	1

Entity 4 branched

description	;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
formula_weight	627.6 kDa
src_method	man
entity_count	1

Entity 5 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	30

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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	2.94 Å
resolution_method	—
num_particles	87577

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

Prefusion structure of GX2012 spike glycoprotein

SAXS Profile

P(r) Distribution