Cryo-EM structure of Z22 mAb in complex with left-handed Z-DNA (dimer of trimer)

entry_id	9tgo
deposition_date	2025-12-02
title	Cryo-EM structure of Z22 mAb in complex with left-handed Z-DNA (dimer of trimer)
keywords	Z-DNA, monoclonal antibody, antibody avidity, left-handed geometry, DNA BINDING PROTEIN; DNA BINDING PROTEIN
method	ELECTRON MICROSCOPY

rg_guinier	37.49 Å
rg_electron	37.70 Å
i0	489536000.00
molecular_weight	166670.0 kDa
excluded_volume	202750 ų
envelope_volume	279370 ų
shell_volume	61142 ų
envelope_diameter	140.6 Å
shell_rg	44.16 Å
envelope_rg	37.13 Å
shape_rg	37.69 Å
total_rg	38.12 Å
total_atoms	11642
n_residues	1410
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	132.6 Å
rg_real	37.41 Å
rg_real_error	1.27 Å
i0_real	4.8950e+08
i0_real_error	9.2460e+06
rg_reciprocal	37.46 Å
i0_reciprocal	489600000.0000
total_estimate	0.8608
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	44.2 Å
skewness	0.322
kurtosis	-0.213
angular_range	— – 0.2100 Å−1
current_alpha	0.0000
highest_alpha	71470000.0000
n_real_points	43
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.734; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.984

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	2.800 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

EM 3D

resolution	2.80 Å
resolution_method	—
num_particles	59879

Files (7)

• pr_distribution /app/data/pr_computation/tg/9tgo/pr_distribution.json
• pr_output /app/data/pr_computation/tg/9tgo/9tgo.pr.out
• pr_plot /app/data/visualization/pr_computation/tg/9tgo/9tgo_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/tg/9tgo/9tgo.dat
• saxs_fit /app/data/saxs_computation/tg/9tgo/9tgo.fit
• saxs_log /app/data/saxs_computation/tg/9tgo/9tgo.log
• saxs_plot /app/data/visualization/saxs_computation/tg/9tgo/9tgo_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/tg/9tgo/9tgo.fit
pddf	/app/data/pr_computation/tg/9tgo/9tgo.pr.out
profile	/app/data/saxs_computation/tg/9tgo/9tgo.dat