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11hb

Crystal structure of a GII.4 norovirus capsid P domain in complex with neutralizing antibody 17A5

Method: X-RAY DIFFRACTION D_max: 176.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	11hb
deposition_date	2026-02-23
last_revision	2026-05-27
title	Crystal structure of a GII.4 norovirus capsid P domain in complex with neutralizing antibody 17A5
keywords	Norovirus GII.4, P domain, Capsid protein, Antibody, VIRAL PROTEIN; VIRAL PROTEIN
method	X-RAY DIFFRACTION

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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	54.83 Å
rg_electron	54.54 Å
i0	789483000.00
molecular_weight	232450.0 kDa
excluded_volume	289600 Å³
envelope_volume	472060 Å³
shell_volume	73079 Å³
envelope_diameter	175.4 Å
shell_rg	58.34 Å
envelope_rg	51.19 Å
shape_rg	54.53 Å
total_rg	54.67 Å
total_atoms	16393
n_residues	2112
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	176.2 Å
rg_real	54.74 Å
rg_real_error	1.93 Å
i0_real	7.8950e+08
i0_real_error	1.5810e+07
rg_reciprocal	54.87 Å
i0_reciprocal	789600000.0000
total_estimate	0.8633
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	72.9 Å
skewness	0.124
kurtosis	-0.586
angular_range	— – 0.1450 Å⁻¹
current_alpha	0.0000
highest_alpha	37160000.0000
n_real_points	30
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.874; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.597

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	Major capsid protein VP1
formula_weight	34560.5 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,E
atom_count	16393

GESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTTQLSPVNICNFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGMLTQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDGSTTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLDCLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLVIPPNGYFRFDSWVNQFYTLAPM

Source

organism	Norovirus GII.4 Sydney 2012
ncbi_taxonomy_id	1776356
host_organism	Escherichia coli

Entity 2 polymer

description	17A5 Light Chain
formula_weight	24786.5 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	L,C,K

DIVMTQSHKFMSTSVGDRVSITCKASQDVGAAVAWYQQKPGQSPKLLIYWASTRHTGVPGRFTGSGSGTDFTLTISNVQSEDLADYFCQQYSIYPYTFGGGTKLEIKTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEC

Source

organism	Mus musculus
common_name	Mouse
ncbi_taxonomy_id	10090
host_organism	Cricetulus griseus

Entity 3 polymer

description	17A5 Heavy Chain
formula_weight	24618.5 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	H,D,G

DVQLQESGPDLVKPSQSLSLTCTVTGYSITSGYSWHWIRQFPGNKLEWMGYIHYSGSINYNPSLKSRISITRDTSKNQFFLQLKSVTTEDTATYYCAREVTVFEYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSLSSGVHTFPAVLQSDLYTLSSSVTVPSSPRPSETVTCNVAHPASSTKVDKKIVPRDCHHHHHH

Source

organism	Mus musculus
common_name	Mouse
ncbi_taxonomy_id	10090
host_organism	Cricetulus griseus

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6. Citations (1)

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length_a	271.954 Å
length_b	134.910 Å
length_c	133.913 Å
angle_alpha	90.00 °
angle_beta	91.75 °
angle_gamma	90.00 °
z_pdb	12

space_group	C 1 2 1
int_tables_number	5
crystal_system	monoclinic

resolution	3.360 Å
resolution_low	48.430 Å
r_factor	0.2598
r_work	0.2577
r_free	0.2996

fit	/app/data/saxs_computation/1h/11hb/11hb.fit
pddf	/app/data/pr_computation/1h/11hb/11hb.pr.out
profile	/app/data/saxs_computation/1h/11hb/11hb.dat

Crystal structure of a GII.4 norovirus capsid P domain in complex with neutralizing antibody 17A5

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

Refinement

Diffraction

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)