Crystal structure of nanobody Tnb494 with MERS-CoV RBD

entry_id	9v0o
deposition_date	2025-05-18
last_revision	2026-05-27
title	Crystal structure of nanobody Tnb494 with MERS-CoV RBD
keywords	MERS-CoV, nanobody, VIRAL PROTEIN/IMMUNE SYSTEM, VIRAL PROTEIN-IMMUNE SYSTEM complex; VIRAL PROTEIN/IMMUNE SYSTEM
method	X-RAY DIFFRACTION

rg_guinier	35.96 Å
rg_electron	35.16 Å
i0	342505000.00
molecular_weight	148110.0 kDa
excluded_volume	184780 ų
envelope_volume	251210 ų
shell_volume	58189 ų
envelope_diameter	124.5 Å
shell_rg	42.88 Å
envelope_rg	34.24 Å
shape_rg	35.14 Å
total_rg	35.80 Å
total_atoms	10409
n_residues	1344
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	111.5 Å
rg_real	35.74 Å
rg_real_error	0.70 Å
i0_real	3.4250e+08
i0_real_error	5.9710e+06
rg_reciprocal	35.88 Å
i0_reciprocal	342500000.0000
total_estimate	0.8902
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	45.6 Å
skewness	0.123
kurtosis	-0.382
angular_range	— – 0.2200 Å−1
current_alpha	0.0000
highest_alpha	32220000.0000
n_real_points	45
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.902; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.975; Smooth: 0.888

Unit Cell

length_a	83.885 Å
length_b	141.533 Å
length_c	153.295 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	16

Symmetry

space_group	P 21 21 21
int_tables_number	19
crystal_system	—

Refinement

resolution	2.700 Å
resolution_low	76.650 Å
r_factor	—
r_work	0.2424
r_free	0.2698

Diffraction

temperature

100.0 K

Files (7)

• pr_distribution /app/data/pr_computation/v0/9v0o/pr_distribution.json
• pr_output /app/data/pr_computation/v0/9v0o/9v0o.pr.out
• pr_plot /app/data/visualization/pr_computation/v0/9v0o/9v0o_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/v0/9v0o/9v0o.dat
• saxs_fit /app/data/saxs_computation/v0/9v0o/9v0o.fit
• saxs_log /app/data/saxs_computation/v0/9v0o/9v0o.log
• saxs_plot /app/data/visualization/saxs_computation/v0/9v0o/9v0o_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/v0/9v0o/9v0o.fit
pddf	/app/data/pr_computation/v0/9v0o/9v0o.pr.out
profile	/app/data/saxs_computation/v0/9v0o/9v0o.dat