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9zwe

;Soluble ectodomain of Herpes simplex virus 2 (HSV-2) glycoprotein B (gB) in the prefusion conformation in complex with 2c and D48 Fabs ;

Method: ELECTRON MICROSCOPY D_max: 175.2 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9zwe
deposition_date	2026-01-01
title	;Soluble ectodomain of Herpes simplex virus 2 (HSV-2) glycoprotein B (gB) in the prefusion conformation in complex with 2c and D48 Fabs ;
keywords	prefusion, ectodomain, viral fusion 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	53.91 Å
rg_electron	54.05 Å
i0	1765920000.00
molecular_weight	348220.0 kDa
excluded_volume	434340 Å³
envelope_volume	614380 Å³
shell_volume	96051 Å³
envelope_diameter	176.9 Å
shell_rg	54.93 Å
envelope_rg	53.67 Å
shape_rg	54.01 Å
total_rg	54.20 Å
total_atoms	48423
n_residues	3024
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	175.2 Å
rg_real	53.77 Å
rg_real_error	1.37 Å
i0_real	1.7660e+09
i0_real_error	3.7020e+07
rg_reciprocal	54.02 Å
i0_reciprocal	1767000000.0000
total_estimate	0.8743
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	72.5 Å
skewness	0.178
kurtosis	-0.455
angular_range	— – 0.1450 Å⁻¹
current_alpha	0.0001
highest_alpha	90060000.0000
n_real_points	30
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.898; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.985; Smooth: 0.684

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4. Crystallography & Experiment

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5. Entities & Polymer Info (5)

Entity 1 polymer

description	Envelope glycoprotein B
formula_weight	83540.7 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	B,A,G
atom_count	48423

EATPPPDANATVAAGHATLRAHLREIKVENADAQFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVWFGNRTSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNMETTAFHRDDHETDMELKPAKVATRCSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTSYAADRFKQVDGFYARDLTTKARATSPTTRNLLTTPKFTVAWDWVPKRPAVCTMTKWQEVDEMLRAEYGGSFRFSSDAISTTFTTNLTEYSLSRVDLGDCIGRDAREAIDRMFARKYNATHIKVGQPQYYLATGGFLIAYQPLLSNTLAELYVREYMREQDRKPRNATPAPLREAPSANASVERIKTTSSIEFARLQFTYNHIQRHVNDMLGRIAVAWCELQNHELTLWNEARKLNPNAIASATVGRRVSARMLGDVMAVSTCVPVAPDNVIVQNSMRVSSRPGTCYSRPLVSFRYEDQGPLIEGQLGENNELRLTRDALEPCTVGHRRYFIFGGGYVYFEEYAYSHQLSRADVTTVPPFIDLNITMLCDHEFVPLEVYTRHEIKDSGLLDYTEVQRRNQLHDLRFADIDTVIRADANAAMFAGGSGYIPEAPRDGQAYVRKDGEWVLLSTFLGRSLEVLFQGPGHHHHHHHHSAWSHPQFEKGGGSGGGGSGGSAWSHPQFEK

Source

organism	Human herpesvirus 2 strain HG52
ncbi_taxonomy_id	10315
host_organism	Homo sapiens

Entity 2 polymer

description	Antibody D48 Heavy Chain
formula_weight	24402.6 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	H,C,L

EVQLVETGGGVVRPGRSLRLSCTTSGFSFSGSAMHWVRQAPGKGLEWVAVISHDGNIIQYHDSVKGRFTISRDNSKNVLLLQMNSLRVDDTAMYYCARDVWLLPATISYAFDFWGQGTMVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCD

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	Antibody D48 Light Chain
formula_weight	23476.2 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	I,D,M

VIWMTQSPPSLSASIGDTVTITCRASQGISNSIAWYQRRPGKAPELLVYAAYRLQSGVPSRLSGSGSGAEYTLTIKNMQPEDFATYYCQQYYDNPLTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Homo sapiens
common_name	human
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 4 polymer

description	Antibody 2c Heavy Chain
formula_weight	24262.4 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	J,E,N

QVTLKESGPGILLPSQTLSLTCSFSGFSLSTSGMSVGWIRQPSGKGLEWLGHIWWNNDKYYKPALKSRLTISKDTSNKQVFLKIASVVTADTATYYCARIYYGYRPYAMDYWGQGTSVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKKVEPKSCD

Source

organism	Mus musculus
common_name	human
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

Entity 5 polymer

description	Antibody 2c Light Chain
formula_weight	24022.8 kDa
src_method	man
entity_count	3

Polymer

type	polypeptide(L)
strand_id	K,F,O

DVLMTQTPLSLPVSLGDQASISCRSSQSIVHSNGNTYLEWYLQKPGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPWSFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Mus musculus
common_name	human
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

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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	2.750 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	2.75 Å
resolution_method	—
num_particles	227517

fit	/app/data/saxs_computation/zw/9zwe/9zwe.fit
pddf	/app/data/pr_computation/zw/9zwe/9zwe.pr.out
profile	/app/data/saxs_computation/zw/9zwe/9zwe.dat

;Soluble ectodomain of Herpes simplex virus 2 (HSV-2) glycoprotein B (gB) in the prefusion conformation in complex with 2c and D48 Fabs ;

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

EM 3D

5. Entities & Polymer Info (5)

Entity 1 polymer

Polymer

Source

Entity 2 polymer

Polymer

Source

Entity 3 polymer

Polymer

Source

Entity 4 polymer

Polymer

Source

Entity 5 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)