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9zt8

Stabilized SARS-CoV-2 S2 apo

Method: ELECTRON MICROSCOPY D_max: 118.3 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9zt8
deposition_date	2025-12-23
title	Stabilized SARS-CoV-2 S2 apo
keywords	SARS-CoV-2, Coronavirus, Immune system, antibody, 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	35.37 Å
rg_electron	34.66 Å
i0	320534000.00
molecular_weight	145650.0 kDa
excluded_volume	182660 Å³
envelope_volume	231720 Å³
shell_volume	54519 Å³
envelope_diameter	122.0 Å
shell_rg	41.95 Å
envelope_rg	34.69 Å
shape_rg	34.66 Å
total_rg	35.17 Å
total_atoms	10227
n_residues	1278
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	118.3 Å
rg_real	35.37 Å
rg_real_error	0.88 Å
i0_real	3.2050e+08
i0_real_error	5.1540e+06
rg_reciprocal	35.37 Å
i0_reciprocal	320500000.0000
total_estimate	0.8723
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	42.1 Å
skewness	0.407
kurtosis	-0.241
angular_range	— – 0.2250 Å⁻¹
current_alpha	0.0000
highest_alpha	124700000.0000
n_real_points	46
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.818; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.883

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Spike protein S2
formula_weight	52342.1 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	10227

SLGAENCVAYSNNSIAIPTNFTISVTTEILPVSMTKTSVDCTMYICGDSTECSNLLLQYGSFCTQLNRALTGIAVEQDKNTQEVFAQVKQIYCTPPIKDFGGFNFSQILPDPSKPSKRSFIEDLLFNKVTLADAGFIKQYGDCLGDIAARDLICAQKFNGLTVLPPLLTDEMIAQYTSALLACTITSGWTCGAGPALQIPFPMQMAYRFNGIGVTQNVLYENQKLIANQFNSAIGKIQDSLSSTPSALGKLQDVVNQNAQALNFLVKQLSSNFGAISSVLNDILSRLDPPEAEWQIDRLIWGRLQSLQTYVTQQLIRAAEIRASANLAATKMSECVLGQSKRVDFCGKGYHLMSFPQSAPHGVVFLHVTYVPAQEKNFTTAPAICHDGKAHFPREGVFVSNGTHWFVTQRNFYEPQIITTDNTFVSGNCDVVIGIVNNTVYDPLQPELDSFKEELDKYFKNHTSGSHHHHHHHH

Source

organism	Severe acute respiratory syndrome coronavirus 2
ncbi_taxonomy_id	2697049
host_organism	Homo sapiens

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	6

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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	triclinic

resolution	2.75 Å
resolution_method	—
num_particles	124168

fit	/app/data/saxs_computation/zt/9zt8/9zt8.fit
pddf	/app/data/pr_computation/zt/9zt8/9zt8.pr.out
profile	/app/data/saxs_computation/zt/9zt8/9zt8.dat