SAXSdb — 9x5z

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1. Structure Basics

entry_id	9x5z
deposition_date	2025-10-14
title	B/Phuket/3073/2013-like HA in complex with BP-1A
keywords	Hemagglutinin, HA, antibody, influenza B virus, BP-1A, VIRAL PROTEIN, 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	43.96 Å
rg_electron	44.00 Å
i0	502348000.00
molecular_weight	180060.0 kDa
excluded_volume	224140 Å³
envelope_volume	303780 Å³
shell_volume	60089 Å³
envelope_diameter	169.3 Å
shell_rg	45.39 Å
envelope_rg	45.06 Å
shape_rg	43.98 Å
total_rg	44.12 Å
total_atoms	12625
n_residues	1601
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	157.0 Å
rg_real	44.33 Å
rg_real_error	1.74 Å
i0_real	5.0230e+08
i0_real_error	9.9050e+06
rg_reciprocal	43.97 Å
i0_reciprocal	502100000.0000
total_estimate	0.8200
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	43.6 Å
skewness	0.589
kurtosis	-0.096
angular_range	— – 0.1800 Å⁻¹
current_alpha	0.0000
highest_alpha	61020000.0000
n_real_points	37
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.684; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.854; Smooth: 0.752

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	Hemagglutinin HA1 chain
formula_weight	39289.1 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	12625

MKAIIVLLMVVTSNADRICTGITSSNSPHVVKTATQGEVNVTGVIPLTTTPTKSYFANLKGTRTRGKLCPDCLNCTDLDVALGRPMCVGTTPSAKASILHEVRPVTSGCFPIMHDRTKIRQLPNLLRGYEKIRLSTQNVIDAEKAPGGPYRLGTSGSCPNATSKIGFFATMAWAVPKDNYKNATNPQTVEIPYICTEGEDQITVWGFHSDNKTQMKSLYGDSNPQKFTSSANGVTTHYVSQIGDFPDQTEDGGLPQSGRIVVDYMMQKPGKTGTIVYQRGVLLPQKVWCASGRSKVIKGSLPLIGEADCLHEEYGGLNKSKPYYTGKHAKAIGNCPIWVKTPLKLANGTKYRPPAKLLKER

Source

organism	Influenza B virus
ncbi_taxonomy_id	11520
host_organism	Cricetulus griseus

Entity 2 polymer

description	Hemagglutinin HA2 chain
formula_weight	25722.6 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	K,M,N

GFFGAIAGFLEGGWEGMIAGWHGYTSHGAHGVAVAADLKSTQEAINKITKNLNSLSELEVKNLQRLSGAMDELHNEILELDEKVDDLRADTISSQIELAVLLSNEGIINSEDEHLLALERKLKKMLGPSAVDIGNGCFETKHKCNQTCLDRIAAGTFNAGEFSLPTFDSLNITAASLNDDGLDGSENLYFQGSLVPRGSPGSGYIPEAPRDGQAYVRKDGEWVLLSTFLGGSHHHHHH

Source

organism	Influenza B virus
ncbi_taxonomy_id	11520
host_organism	Cricetulus griseus

Entity 3 polymer

description	BP-1A heavy chain
formula_weight	52144.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

MGWSCIILFLVATATGVHSEVQLVESGGGVVQPGRSLRLSCAASGFIFNDYNMHWVRQSPGKGLEWVATIWNDGSDKYYSDSVKGRFTISKDDSKKTLFLQMNSLRAEDTAVYYCARDEISYWDYYGSGSLDHWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCDKTHTCPPCPAPELLGGPSVFLFPPKPKDTLMISRTPEVTCVVVDVSHEDPEVKFNWYVDGVEVHNAKTKPREEQYNSTYRVVSVLTVLHQDWLNGKEYKCKVSNKALPAPIEKTISKAKGQPREPQVYTLPPSRDELTKNQVSLTCLVKGFYPSDIAVEWESNGQPENNYKTTPPVLDSDGSFFLYSKLTVDKSRWQQGNVFSCSVMHEALHNHYTQKSLSLSPGK

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Cricetulus griseus

Entity 4 polymer

description	BP-1A light chain
formula_weight	25243.2 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L

MGWSCIILFLVATATGVHSEIVMTQSPATVSVSPGERATLSCRASQSVGSKLGWYQQKPGQAPRLLISGASTRASGIPARFSGSGSGTDFTLTITSLQSEDFAVYYCQQYDNWPRTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Cricetulus griseus

Entity 5 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	6

Entity 6 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	12

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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	300005

fit	/app/data/saxs_computation/x5/9x5z/9x5z.fit
pddf	/app/data/pr_computation/x5/9x5z/9x5z.pr.out
profile	/app/data/saxs_computation/x5/9x5z/9x5z.dat

B/Phuket/3073/2013-like HA in complex with BP-1A

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 (6)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 branched

Entity 6 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)