ROS-Sensing Transcription Factor YchJ Regulates the RssB-RpoS Pathway to Protect Salmonella Against Oxidative Attack by Macrophages

entry_id	9vxg
deposition_date	2025-07-18
last_revision	2025-08-06
title	ROS-Sensing Transcription Factor YchJ Regulates the RssB-RpoS Pathway to Protect Salmonella Against Oxidative Attack by Macrophages
keywords	DNA binding, DNA BINDING PROTEIN; DNA BINDING PROTEIN
method	X-RAY DIFFRACTION

rg_guinier	16.77 Å
rg_electron	15.69 Å
i0	5786380.00
molecular_weight	16614.0 kDa
excluded_volume	20452 ų
envelope_volume	24238 ų
shell_volume	13293 ų
envelope_diameter	54.3 Å
shell_rg	21.16 Å
envelope_rg	16.21 Å
shape_rg	15.64 Å
total_rg	16.82 Å
total_atoms	1162
n_residues	147
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	54.1 Å
rg_real	16.69 Å
rg_real_error	0.29 Å
i0_real	5.7860e+06
i0_real_error	7.0680e+04
rg_reciprocal	16.70 Å
i0_reciprocal	5786000.0000
total_estimate	0.8945
solution_quality	GOOD a GOOD solution
n_peaks	2
r_peak_primary	22.5 Å
skewness	0.151
kurtosis	-0.391
angular_range	— – 0.4750 Å−1
current_alpha	0.0000
highest_alpha	813600.0000
n_real_points	78
gnom_version	4.1.3
quality_criteria	AN1: 0.000; Oscil: 0.877; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.994

Unit Cell

length_a	58.937 Å
length_b	58.937 Å
length_c	124.367 Å
angle_alpha	90.00 °
angle_beta	90.00 °
angle_gamma	90.00 °
z_pdb	8

Symmetry

space_group	P 43 21 2
int_tables_number	96
crystal_system	—

Refinement

resolution	2.302 Å
resolution_low	29.468 Å
r_factor	0.2333
r_work	0.2316
r_free	0.2662

Diffraction

temperature

100.0 K

Files (7)

• pr_distribution /app/data/pr_computation/vx/9vxg/pr_distribution.json
• pr_output /app/data/pr_computation/vx/9vxg/9vxg.pr.out
• pr_plot /app/data/visualization/pr_computation/vx/9vxg/9vxg_pr_distribution.png
• saxs_curve_dat /app/data/saxs_computation/vx/9vxg/9vxg.dat
• saxs_fit /app/data/saxs_computation/vx/9vxg/9vxg.fit
• saxs_log /app/data/saxs_computation/vx/9vxg/9vxg.log
• saxs_plot /app/data/visualization/saxs_computation/vx/9vxg/9vxg_saxs_profile.png

Curves (3)

fit	/app/data/saxs_computation/vx/9vxg/9vxg.fit
pddf	/app/data/pr_computation/vx/9vxg/9vxg.pr.out
profile	/app/data/saxs_computation/vx/9vxg/9vxg.dat