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9uaa

Nipah virus fusion glycoprotein in complex with a broadly neutralizing antibody 5C8

Method: ELECTRON MICROSCOPY D_max: 130.1 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9uaa
deposition_date	2025-03-31
title	Nipah virus fusion glycoprotein in complex with a broadly neutralizing antibody 5C8
keywords	Henipavirus, Fusion glycoprotein, Antibody, ANTIVIRAL PROTEIN, 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	41.66 Å
rg_electron	40.89 Å
i0	713244000.00
molecular_weight	222450.0 kDa
excluded_volume	280210 Å³
envelope_volume	385800 Å³
shell_volume	77713 Å³
envelope_diameter	139.8 Å
shell_rg	47.31 Å
envelope_rg	40.01 Å
shape_rg	40.88 Å
total_rg	41.27 Å
total_atoms	15630
n_residues	2013
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	130.1 Å
rg_real	41.47 Å
rg_real_error	0.84 Å
i0_real	7.1320e+08
i0_real_error	1.1930e+07
rg_reciprocal	41.66 Å
i0_reciprocal	713400000.0000
total_estimate	0.8811
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	54.8 Å
skewness	0.179
kurtosis	-0.322
angular_range	— – 0.1900 Å⁻¹
current_alpha	0.0000
highest_alpha	100400000.0000
n_real_points	39
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.884; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.965; Smooth: 0.834

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Fusion glycoprotein F0
formula_weight	48823.9 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	A,B,C
atom_count	15994

ILHYEKLSKIGLVKGVTRKYKIKSNPLTKDIVIKMIPNVSNMSQCTGSVMENYKTRLNGILTPIKGALEIYKNNTHDLVGDVRLAGVIMAGVAIGIATAAQITAGVALYEAMKNADNINKLKSSIESTNEAVVKLQETAEKTVYVLTALQDYINTNLVPTIDKISCKQTELSLDLALSKYLSDLLFVFGPNLQDPVSNSMTIQAISQAFGGNYETLLRTLGYATEDFDDLLESDSITGQIIYVDLSSYYIIVRVYFPILTEIQQAYIQELLPVSFNNDNSEWISIVPNFILVRNTLISNIEIGFCLITKRSVICNQDYATPMTNNMRECLTGSTEKCPRELVVSSHVPRFALSNGVLFANCISVTCQCQTTGRAISQSGEQTLLMIDNTTCPTAVLGNVIISLGKYLGSVNYNSEGIAIGPPVFTDKVDISSQISSMNQSLQQSK

Source

organism	Henipavirus nipahense
ncbi_taxonomy_id	3052225
host_organism	Homo sapiens

Entity 2 polymer

description	5C8-VL
formula_weight	11414.6 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	F,E,D

DIQLTQSPSSLSASVGDTVTITCQASQGIGNNLHWYQQKPGKAPKLLIYRASSLQSGIPSRFSGSGSGTDYTLTISSLQPEDFAYYCQQGYSYPFTFGPGTKVDIK

Source

organism	Macaca
ncbi_taxonomy_id	9539
host_organism	Homo sapiens

Entity 3 polymer

description	5C8-VH
formula_weight	14085.8 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	G,H,I

QVQLQESGPGVVKPSETLSLTCAVSGGSISDSYRWSWIRQPPGKGLEWIGYIYGSSTSTNYNPSLKSRVTISKDTSKNQFSLNLSSLTAADTAVYYCVRVVQYLEWFVDLIEVNWFDVWGPGVLVTV

Source

organism	Macaca
ncbi_taxonomy_id	9539
host_organism	Homo sapiens

Entity 4 non-polymer

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

Entity 5 water

description	water
formula_weight	18.0 kDa
src_method	nat
entity_count	340

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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	2.22 Å
resolution_method	—
num_particles	462582

fit	/app/data/saxs_computation/ua/9uaa/9uaa.fit
pddf	/app/data/pr_computation/ua/9uaa/9uaa.pr.out
profile	/app/data/saxs_computation/ua/9uaa/9uaa.dat

Nipah virus fusion glycoprotein in complex with a broadly neutralizing antibody 5C8

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 (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 non-polymer

Entity 5 water

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)