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9vwz

Local refinement region of HPV45 in complex with antibody A16E6

Method: ELECTRON MICROSCOPY D_max: 128.9 Å Quality: GOOD

SAXS Profile

P(r) Distribution

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1. Structure Basics

entry_id	9vwz
deposition_date	2025-07-17
title	Local refinement region of HPV45 in complex with antibody A16E6
keywords	Human papillomavirus, Cryo-EM, STRUCTURAL PROTEIN/IMMUNE SYSTEM, STRUCTURAL PROTEIN-IMMUNE SYSTEM complex; STRUCTURAL 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	41.58 Å
rg_electron	40.91 Å
i0	949445000.00
molecular_weight	251290.0 kDa
excluded_volume	312910 Å³
envelope_volume	435400 Å³
shell_volume	83521 Å³
envelope_diameter	143.5 Å
shell_rg	49.88 Å
envelope_rg	40.76 Å
shape_rg	40.91 Å
total_rg	41.35 Å
total_atoms	17690
n_residues	2275
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	128.9 Å
rg_real	41.35 Å
rg_real_error	0.96 Å
i0_real	9.4940e+08
i0_real_error	1.5640e+07
rg_reciprocal	41.58 Å
i0_reciprocal	949700000.0000
total_estimate	0.8125
solution_quality	GOOD a GOOD solution
n_peaks	3
r_peak_primary	54.3 Å
skewness	0.115
kurtosis	-0.432
angular_range	— – 0.1900 Å⁻¹
current_alpha	0.0000
highest_alpha	211000000.0000
n_real_points	39
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.878; Stabil: 0.987; Sysdev: 1.000; Positv: 1.000; Valcen: 0.965; Smooth: 0.000

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4. Crystallography & Experiment

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5. Entities & Polymer Info (3)

Entity 1 polymer

description	A16E6 Fab light chain
formula_weight	11390.6 kDa
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	L
atom_count	17690

QIVLTQSPAIMSASPGEKVTISCSASSSVSYMYWYQQKPGSSPKPWIYRTSNLASGVPARFSGSGSGTSYSLTISSMEAEDAATYYCQQYHSYPPTFGGGTKLEIK

Entity 2 polymer

description	A16E6 Fab heavy chain
formula_weight	13618.2 kDa
src_method	nat
entity_count	1

Polymer

type	polypeptide(L)
strand_id	H

QVQLQQSGPELVRPGVSVKISCKGSGYTFTDYSMHWVKQSHTKSLEWIGVISTYYGKTNYNQRFKGKATMTVDKSSSTAYMELARLTSEDSAIYYCARRYDGKADYGMDYWGQGTSVTVSS

Entity 3 polymer

description	Major capsid protein L1
formula_weight	57379.9 kDa
src_method	man
entity_count	5

Polymer

type	polypeptide(L)
strand_id	A,B,E,C,D

MALWRPSDSTVYLPPPSVARVVSTDDYVSRTSIFYHAGSSRLLTVGNPYFRVVPNGAGNKQAVPKVSAYQYRVFRVALPDPNKFGLPDSTIYNPETQRLVWACVGMEIGRGQPLGIGLSGHPFYNKLDDTESAHAATAVITQDVRDNVSVDYKQTQLCILGCVPAIGEHWAKGTLCKPAQLQPGDCPPLELKNTIIEDGDMVDTGYGAMDFSTLQDTKCEVPLDICQSICKYPDYLQMSADPYGDSMFFCLRREQLFARHFWNRAGVMGDTVPTDLYIKGTSANMRETPGSCVYSPSPSGSIITSDSQLFNKPYWLHKAQGHNNGICWHNQLFVTVVDTTRSTNLTLCASTQNPVPSTYDPTKFKQYSRHVEEYDLQFIFQLCTITLTAEVMSYIHSMNSSILENWNFGVPPPPTTSLVDTYRFVQSVAVTCQKDTTPPEKQDPYDKLKFWTVDLKEKFSSDLDQYPLGRKFLVQAGLRRRPTIGPRKRPAASTSTASTASRPAKRVRIRSKK

Source

organism	human papillomavirus 45
ncbi_taxonomy_id	10593
host_organism	Escherichia coli

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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	4.000 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

resolution	4.00 Å
resolution_method	—
num_particles	260276

fit	/app/data/saxs_computation/vw/9vwz/9vwz.fit
pddf	/app/data/pr_computation/vw/9vwz/9vwz.pr.out
profile	/app/data/saxs_computation/vw/9vwz/9vwz.dat

Local refinement region of HPV45 in complex with antibody A16E6

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 (3)

Entity 1 polymer

Polymer

Entity 2 polymer

Polymer

Entity 3 polymer

Polymer

Source

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)