SARS-CoV-2 Omicron BA.1 RBD in complex with Omi32 germline Fab and LC-Kappa VHH

entry_id	11oq
deposition_date	2026-03-06
title	SARS-CoV-2 Omicron BA.1 RBD in complex with Omi32 germline Fab and LC-Kappa VHH
keywords	germline, antibody, rbd, omicron, ba.1, IMMUNE SYSTEM, IMMUNE SYSTEM-Viral Protein complex; IMMUNE SYSTEM/Viral Protein
method	ELECTRON MICROSCOPY

rg_guinier	32.84 Å
rg_electron	32.78 Å
i0	105092000.00
molecular_weight	80390.0 kDa
excluded_volume	99967 ų
envelope_volume	129670 ų
shell_volume	34834 ų
envelope_diameter	115.7 Å
shell_rg	37.59 Å
envelope_rg	32.72 Å
shape_rg	32.74 Å
total_rg	33.28 Å
total_atoms	5670
n_residues	735
n_harmonics	20
q_range	— – 0.5000 Å−1
n_points	101
shell_type	directional
solvent_density	0.3340 e/ų
contrast_shell	0.0300 e/ų
crysol_version	4.1.3

dmax	113.2 Å
rg_real	33.05 Å
rg_real_error	1.19 Å
i0_real	1.0510e+08
i0_real_error	1.7770e+06
rg_reciprocal	32.97 Å
i0_reciprocal	105100000.0000
total_estimate	0.8615
solution_quality	GOOD a GOOD solution
n_peaks	0
r_peak_primary	— Å
skewness	0.467
kurtosis	-0.305
angular_range	— – 0.2400 Å−1
current_alpha	0.0000
highest_alpha	15950000.0000
n_real_points	49
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.826; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.858; Smooth: 0.858

Unit Cell

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	—

Symmetry

space_group	P 1
int_tables_number	1
crystal_system	—

Refinement

resolution	3.200 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

EM 3D

resolution	3.20 Å
resolution_method	—
num_particles	47421

Files (7)

• pr_distribution /app/data/pr_computation/1o/11oq/pr_distribution.json
• pr_output /app/data/pr_computation/1o/11oq/11oq.pr.out
• pr_plot /app/data/visualization/pr_computation/1o/11oq/11oq_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/1o/11oq/11oq.dat
• saxs_fit /app/data/saxs_computation/1o/11oq/11oq.fit
• saxs_log /app/data/saxs_computation/1o/11oq/11oq.log
• saxs_plot /app/data/visualization/saxs_computation/1o/11oq/11oq_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/1o/11oq/11oq.fit
pddf	/app/data/pr_computation/1o/11oq/11oq.pr.out
profile	/app/data/saxs_computation/1o/11oq/11oq.dat