SAXSdb — 9pw4

▼

1. Structure Basics

entry_id	9pw4
deposition_date	2025-08-04
title	Structure of V30V4 in complex with SARS-CoV-2 spike
keywords	SARS-Cov-2 G614 antibody, VIRAL PROTEIN; VIRAL PROTEIN
method	ELECTRON MICROSCOPY

▼

Download Data

SAXS curve (.dat) P(r) distribution (.pr.out) Structure (CIF)

▼

2. SAXS Parameters (CRYSOL)

rg_guinier	43.29 Å
rg_electron	43.96 Å
i0	205334000.00
molecular_weight	115790.0 kDa
excluded_volume	144350 Å³
envelope_volume	200760 Å³
shell_volume	41029 Å³
envelope_diameter	155.1 Å
shell_rg	43.72 Å
envelope_rg	44.20 Å
shape_rg	43.88 Å
total_rg	44.18 Å
total_atoms	8160
n_residues	1058
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

▼

3. P(r) Analysis (GNOM)

dmax	156.3 Å
rg_real	43.82 Å
rg_real_error	1.87 Å
i0_real	2.0530e+08
i0_real_error	4.0770e+06
rg_reciprocal	43.30 Å
i0_reciprocal	205200000.0000
total_estimate	0.7633
solution_quality	GOOD a GOOD solution
n_peaks	1
r_peak_primary	34.7 Å
skewness	0.565
kurtosis	-0.353
angular_range	— – 0.1800 Å⁻¹
current_alpha	0.0000
highest_alpha	13240000.0000
n_real_points	37
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.592; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.502; Smooth: 0.641

▶

4. Crystallography & Experiment

▶

5. Entities & Polymer Info (6)

Entity 1 polymer

description	Spike protein S1
formula_weight	76543.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	A
atom_count	8160

MFVFLVLLPLVSSQCVNLTTRTQLPPAYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFDNPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLGVYYHKNNKSWMESEFRVYSSANNCTFEYVSQPFLMDLEGKQGNFKNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPLVDLPIGINITRFQTLLALHRSYLTPGDSSSGWTAGAAAYYVGYLQPRTFLLKYNENGTITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESIVRFPNITNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPKKSTNLVKNKCVNFNFNGLTGTGVLTESNKKFLPFQQFGRDIADTTDAVRDPQTLEILDITPCSFGGVSVITPGTNTSNQVAVLYQGVNCTEVPVAIHADQLTPTWRVYSTGSNVFQTRAGCLIGAEHVNNSYECDIPIGAGICASYQTQTNSPRRA

Source

organism	Severe acute respiratory syndrome coronavirus 2
ncbi_taxonomy_id	2697049
host_organism	Homo sapiens

Entity 2 polymer

description	V30V4 FAB LIGHT CHAIN
formula_weight	23545.1 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	D

EIVLTQSPGTLSLSPGERATLSCRVSQSVSSNSLAWYQQKPGQPPRLLIYGASSRATGIPDRFSGSGSGTDFTLTINRLEPEDFAVYYCQQYGSSPPITFGQGTRLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 3 polymer

description	SP1-77 FAB LIGHT CHAIN
formula_weight	23294.6 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	F

DIQMTQSPSSLSASVGDRVTITCQASQDISDYLNWYQQQPGKAPKLLIYDASNLETGVPSRFSGSGSGTDFTFTISSLQPEDIGTYYCQQYDNLPTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTYSLSSTLTLSKADYEKHKVYACEVTHQGLSSPVTKSFNRGEC

Source

organism	Mus musculus
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

Entity 4 polymer

description	V30V4 FAB HEAVY CHAIN
formula_weight	24051.9 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	C

EVQLVESGGGLIQPGGSLRLSCTASEIIVSRNYMSWVRQAPGKGLEWVSLIYAGGSTFYADSVKGRFTISRDDSKNTLYLQMNSLRAEDTAVYYCARDLFEAGATDYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTQTYICNVNHKPSNTKVDKRVEPKSCDKTHT

Source

organism	Homo sapiens
ncbi_taxonomy_id	9606
host_organism	Homo sapiens

Entity 5 polymer

description	SP1-77 FAB HEAVY CHAIN
formula_weight	24236.2 kDa
src_method	man
entity_count	1

Polymer

type	polypeptide(L)
strand_id	E

QVQLVQSGAEVKKPGASVKVSCKASGYTFTGTYIHWVRQAPGQGLEWMGWINPNSGGTNFAQIFQGRVTLTRDTSISTAYMDLNRLKSDDTAVYYCARDRVLYGRSFGWYFDVWGAGTTVTVSSASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSLSSVVTVPSSSLGTKTYTCNVDHKPSNTKVDKRVESK

Source

organism	Mus musculus
ncbi_taxonomy_id	10090
host_organism	Homo sapiens

Entity 6 branched

description	;beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose ;
formula_weight	732.7 kDa
src_method	man
entity_count	1

▶

6. Citations (1)

▶

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	triclinic

resolution	2.85 Å
resolution_method	—
num_particles	244319

fit	/app/data/saxs_computation/pw/9pw4/9pw4.fit
pddf	/app/data/pr_computation/pw/9pw4/9pw4.pr.out
profile	/app/data/saxs_computation/pw/9pw4/9pw4.dat

Structure of V30V4 in complex with SARS-CoV-2 spike

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 (6)

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

Entity 6 branched

6. Citations (1)

7. Files & Curves (10)

Files (7)

Curves (3)