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9ugo

Cryo-EM structure of the HBsAg dimer and Complex with Fab

Method: ELECTRON MICROSCOPY D_max: 144.6 Å Quality: REASONABLE

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9ugo
deposition_date	2025-04-13
title	Cryo-EM structure of the HBsAg dimer and Complex with Fab
keywords	HBV antigen, dimer, Fab, complex, VIRAL PROTEIN/IMMUNE SYSTEM, VIRAL PROTEIN-IMMUNE SYSTEM complex; VIRAL PROTEIN/IMMUNE SYSTEM
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	43.15 Å
rg_electron	43.41 Å
i0	201238000.00
molecular_weight	115030.0 kDa
excluded_volume	143710 Å³
envelope_volume	216110 Å³
shell_volume	43914 Å³
envelope_diameter	152.0 Å
shell_rg	45.27 Å
envelope_rg	42.55 Å
shape_rg	43.40 Å
total_rg	43.58 Å
total_atoms	8079
n_residues	1070
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	144.6 Å
rg_real	43.45 Å
rg_real_error	1.91 Å
i0_real	2.0120e+08
i0_real_error	3.7550e+06
rg_reciprocal	43.15 Å
i0_reciprocal	201200000.0000
total_estimate	0.6241
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	35.2 Å
skewness	0.393
kurtosis	-0.660
angular_range	— – 0.1850 Å⁻¹
current_alpha	0.0000
highest_alpha	17510000.0000
n_real_points	38
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.802; Stabil: 1.000; Sysdev: 0.083; Positv: 1.000; Valcen: 0.778; Smooth: 0.677

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Fab light chain
formula_weight	23426.0 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	A,D
atom_count	8079

EIVMTQSPATLSVSPGERATLSCRASQSVSNNLAWYQQKPGQAPRLLIYGASTRATGIPARFSGSGSGTEFTLTISSLQSEDSAVYYCQQHHSWPPFTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	Fab heavy chain
formula_weight	24121.2 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	B,F

QVQLVQSGAEVKKPGSSVKVYCKASGGTFRSYGLNWVRQAPGQGLEWMGRIVPIFGISNFAQKFQGRFTITADRSANTPYMELSSLRSEDTAVYYCVRGGAVAGAGSAGEGIFDYWDQGTLVIVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSC

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	Middle S protein
formula_weight	11008.2 kDa
src_method	man
entity_count	2

Polymer

type	polypeptide(L)
strand_id	C,E

RWMCLRRFIIFLFILLLCLIFLLVLLDYQGMLPVCPLIPGSSTTSTGPCRTCMTTAQGTSMYPSCCCTKPSDGNCTCIPIPSSWAFGKFLWEWASARF

Source

organism	hepatitis B virus genotype A
ncbi_taxonomy_id	489455
host_organism	Yeast centromeric expression vector p416CYC

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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	4.00 Å
resolution_method	—
num_particles	53213

fit	/app/data/saxs_computation/ug/9ugo/9ugo.fit
pddf	/app/data/pr_computation/ug/9ugo/9ugo.pr.out
profile	/app/data/saxs_computation/ug/9ugo/9ugo.dat

Cryo-EM structure of the HBsAg dimer and Complex with Fab

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

5. Entities & Polymer Info (3)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)