CryoEM structure of MraZ in complex with 4 box promoter from Mycoplasma genitalium

entry_id	9sz7
deposition_date	2025-10-14
title	CryoEM structure of MraZ in complex with 4 box promoter from Mycoplasma genitalium
keywords	MraZ, transcription factor, DNA BINDING PROTEIN; DNA BINDING PROTEIN
method	ELECTRON MICROSCOPY

rg_guinier	64.85 Å
rg_electron	62.21 Å
i0	961255000.00
molecular_weight	221530.0 kDa
excluded_volume	260540 ų
envelope_volume	464290 ų
shell_volume	62061 ų
envelope_diameter	178.9 Å
shell_rg	66.98 Å
envelope_rg	58.22 Å
shape_rg	62.03 Å
total_rg	62.81 Å
total_atoms	15354
n_residues	1570
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	174.9 Å
rg_real	64.76 Å
rg_real_error	1.52 Å
i0_real	9.6130e+08
i0_real_error	1.7840e+07
rg_reciprocal	64.81 Å
i0_reciprocal	961200000.0000
total_estimate	0.7949
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	116.6 Å
skewness	-0.071
kurtosis	-1.129
angular_range	— – 0.1200 Å−1
current_alpha	0.0000
highest_alpha	16690000.0000
n_real_points	25
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.871; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.718; Smooth: 0.000

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	3.870 Å
resolution_low	— Å
r_factor	—
r_work	—
r_free	—

EM 3D

resolution	3.87 Å
resolution_method	—
num_particles	46906

Files (7)

• pr_distribution /app/data/pr_computation/sz/9sz7/pr_distribution.json
• pr_output /app/data/pr_computation/sz/9sz7/9sz7.pr.out
• pr_plot /app/data/visualization/pr_computation/sz/9sz7/9sz7_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/sz/9sz7/9sz7.dat
• saxs_fit /app/data/saxs_computation/sz/9sz7/9sz7.fit
• saxs_log /app/data/saxs_computation/sz/9sz7/9sz7.log
• saxs_plot /app/data/visualization/saxs_computation/sz/9sz7/9sz7_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/sz/9sz7/9sz7.fit
pddf	/app/data/pr_computation/sz/9sz7/9sz7.pr.out
profile	/app/data/saxs_computation/sz/9sz7/9sz7.dat