SAXSdb — 9zv1

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1. Structure Basics

entry_id	9zv1
deposition_date	2025-12-29
title	CryoEM structure of H5N1 A/Texas/37/2024 HA bound to Fab H51
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	46.46 Å
rg_electron	45.84 Å
i0	905388000.00
molecular_weight	245810.0 kDa
excluded_volume	305770 Å³
envelope_volume	408190 Å³
shell_volume	73989 Å³
envelope_diameter	145.3 Å
shell_rg	50.51 Å
envelope_rg	45.49 Å
shape_rg	45.84 Å
total_rg	46.00 Å
total_atoms	17300
n_residues	2109
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	139.0 Å
rg_real	46.25 Å
rg_real_error	0.90 Å
i0_real	9.0540e+08
i0_real_error	1.5250e+07
rg_reciprocal	46.46 Å
i0_reciprocal	905600000.0000
total_estimate	0.8697
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	61.3 Å
skewness	0.090
kurtosis	-0.708
angular_range	— – 0.1700 Å⁻¹
current_alpha	0.0000
highest_alpha	96600000.0000
n_real_points	35
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.986; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.998; Smooth: 0.345

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	H51 Fab Heavy Chain
formula_weight	13309.9 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	H,I,D
atom_count	17300

EVQLVQSRAEVKKPGESLKISCQGSGYRFTNYWIAWVRQMPGKGLEWMGIVYPGDSDVRYSPSFEGQVTISADKSISTAYLQWSSLKASDTGVYYCARKDGSGSFPFDFWGQGTLVTVSS

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 2 polymer

description	H51 Fab Light Chain
formula_weight	11676.1 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	L,K,G

EIVLTQSPGTLSLSPGERATVSCRASQNVSGTYLAWYQQKPGQAPSLLIYDASIRAIGTPDRFSGSGFGTDLTLIIRRLEPEDFAVYYCQQYGTSPLTFGGGTKVEIK

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	Hemagglutinin
formula_weight	65585.8 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C

MENIVLLLAIVSLVKSDQICIGYHANNSTEQVDTIMEKNVTVTHAQDILEKTHNGKLCDLNGVKPLILKDCSVAGWLLGNPMCDEFIRVPEWSYIVERANPANDLCYPGSLNDYEELKHMLSRINHFEKIQIIPKSSWPNHETSLGVSAACPYQGAPSFFRNVVWLIKKNDAYPTIKISYNNTNREDLLILWGIHHSNNAEEQTNLYKNPITYISVGTSTLNQRLAPKIATRSQVNGQRGRMDFFWTILKPDDAIHFESNGNFIAPEYAYKIVKKGDSTIMKSGVEYGHCNTKCQTPVGAINSSMPFHNIHPLTIGECPKYVKSNKLVLATGLRNSPLRRRRRRGLFGAIAGFIEGGWQGMVDGWYGYHHSNEQGSGYAADKESTQKAIDGVTNKVNSIIDKMNTQFEAVGREFNNLERRIENLNKKMEDGFLDVWTYNAELLVLMENERTLDFHDSNVKNLYDKVRLQLRDNAKELGNGCFEFYHKCDNECMESVRNGTYDYPQYSEEARLKREGSSGSSGYIPEAPRDGQAYVRKDGEWVLLSTFLGHHHHHHHHHGGSGLNDIFEAQKIEWHE

Source

organism	Influenza A virus
ncbi_taxonomy_id	11320
host_organism	Homo sapiens

Entity 4 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 5 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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resolution	2.70 Å
resolution_method	—
num_particles	183858

fit	/app/data/saxs_computation/zv/9zv1/9zv1.fit
pddf	/app/data/pr_computation/zv/9zv1/9zv1.pr.out
profile	/app/data/saxs_computation/zv/9zv1/9zv1.dat

CryoEM structure of H5N1 A/Texas/37/2024 HA bound to Fab H51

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 (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 branched

Entity 5 non-polymer

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)