SAXSdb — 9zv9

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1. Structure Basics

entry_id	9zv9
deposition_date	2025-12-30
title	CryoEM structure of H5N1 A/Texas/37/2024 HA bound to Fab H77
keywords	H5N1, antibody, influenza, VIRAL PROTEIN, ANTIMICROBIAL 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	46.64 Å
rg_electron	45.96 Å
i0	950589000.00
molecular_weight	252280.0 kDa
excluded_volume	313950 Å³
envelope_volume	428950 Å³
shell_volume	76862 Å³
envelope_diameter	142.2 Å
shell_rg	51.18 Å
envelope_rg	45.29 Å
shape_rg	45.96 Å
total_rg	46.16 Å
total_atoms	17756
n_residues	2133
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	146.9 Å
rg_real	46.37 Å
rg_real_error	0.94 Å
i0_real	9.5060e+08
i0_real_error	1.6770e+07
rg_reciprocal	46.64 Å
i0_reciprocal	950900000.0000
total_estimate	0.6982
solution_quality	REASONABLE a REASONABLE solution
n_peaks	1
r_peak_primary	64.8 Å
skewness	0.059
kurtosis	-0.636
angular_range	— – 0.1700 Å⁻¹
current_alpha	0.0000
highest_alpha	71420000.0000
n_real_points	35
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.941; Stabil: 1.000; Sysdev: 0.115; Positv: 1.000; Valcen: 0.983; Smooth: 0.922

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4. Crystallography & Experiment

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5. Entities & Polymer Info (6)

Entity 1 polymer

description	Hemagglutinin
formula_weight	65585.8 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	17756

MENIVLLLAIVSLVKSDQICIGYHANNSTEQVDTIMEKNVTVTHAQDILEKTHNGKLCDLNGVKPLILKDCSVAGWLLGNPMCDEFIRVPEWSYIVERANPANDLCYPGSLNDYEELKHMLSRINHFEKIQIIPKSSWPNHETSLGVSAACPYQGAPSFFRNVVWLIKKNDAYPTIKISYNNTNREDLLILWGIHHSNNAEEQTNLYKNPITYISVGTSTLNQRLAPKIATRSQVNGQRGRMDFFWTILKPDDAIHFESNGNFIAPEYAYKIVKKGDSTIMKSGVEYGHCNTKCQTPVGAINSSMPFHNIHPLTIGECPKYVKSNKLVLATGLRNSPLRRRRRRGLFGAIAGFIEGGWQGMVDGWYGYHHSNEQGSGYAADKESTQKAIDGVTNKVNSIIDKMNTQFEAVGREFNNLERRIENLNKKMEDGFLDVWTYNAELLVLMENERTLDFHDSNVKNLYDKVRLQLRDNAKELGNGCFEFYHKCDNECMESVRNGTYDYPQYSEEARLKREGSSGSSGYIPEAPRDGQAYVRKDGEWVLLSTFLGHHHHHHHHHGGSGLNDIFEAQKIEWHE

Source

organism	Influenza A virus
ncbi_taxonomy_id	11320
host_organism	Homo sapiens

Entity 2 polymer

description	Fab 77 Heavy Chain
formula_weight	26904.3 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	H,D,G

MGWSCIILFLVATATGVHSQVKLQESGPGPVKPSETLSLTCTLSGGSITNYYWSWIRQTPGKGLDWIGYFHYSGITNYNPSLKSRVTMSVDTSKSLVSLKLTSVTAADTAVYYCATQSTWNFPFDSWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKXVEPKSCDKTHHHHHHHH

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	Fab 77 Light Chain
formula_weight	26405.5 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	L,I,K

MGWSCIILFLVATATGVHSDIVMTQFPDSLAVSLGERATINCKSSHSVFYSSTNKNYLAWYQQKSGQPPKLLIYWASTRKSGVPDHFSGTGSGTDFTLTISSLQPEDVAVYYCQQFYNTPWTFGQGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 4 branched

description	;alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
formula_weight	748.7 kDa
src_method	man
entity_count	3

Entity 5 branched

description	;N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ;
formula_weight	1405.3 kDa
src_method	man
entity_count	3

Entity 6 non-polymer

description	2-acetamido-2-deoxy-beta-D-glucopyranose
formula_weight	221.2 kDa
src_method	syn
entity_count	9

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6. Citations (1)

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resolution	2.79 Å
resolution_method	—
num_particles	241526

fit	/app/data/saxs_computation/zv/9zv9/9zv9.fit
pddf	/app/data/pr_computation/zv/9zv9/9zv9.pr.out
profile	/app/data/saxs_computation/zv/9zv9/9zv9.dat

CryoEM structure of H5N1 A/Texas/37/2024 HA bound to Fab H77

SAXS Profile

P(r) Distribution

1. Structure Basics

Download Data

2. SAXS Parameters (CRYSOL)

3. P(r) Analysis (GNOM)

4. Crystallography & Experiment

EM 3D

5. Entities & Polymer Info (6)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 branched

Entity 5 branched

Entity 6 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)