9L6B | pdb_00009l6b

A ROS-Sensing Transcription Factor Promotes RpoS Accumulation to Resist Oxidative Stress

• PDB DOI: https://doi.org/10.2210/pdb9L6B/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-12-24 Released: 2025-01-29 
• Deposition Author(s): Yuan, X.L., Wang, W.W.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.271 (Depositor), 0.272 (DCC) 
• R-Value Work: 
  0.229 (Depositor), 0.231 (DCC) 
• R-Value Observed: 
  0.231 (Depositor) 

Starting Model: experimental

Literature

A ROS-Sensing Transcription Factor Promotes RpoS Accumulation to Resist Oxidative Stress

Yuan, X.L., Wang, W.W.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 17.12 kDa 
• Atom Count: 1,276 
• Modeled Residue Count: 152 
• Deposited Residue Count: 152 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UPF0225 protein YchJ -A	A	60	Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S	Mutation(s): 0  Gene Names: ychJ, STM14_2121
UniProt
Find proteins for A0A0F6B249 (Salmonella typhimurium (strain 14028s / SGSC 2262)) Explore A0A0F6B249  Go to UniProtKB:  A0A0F6B249

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
UPF0225 protein YchJ -B	B	60	Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S	Mutation(s): 0  Gene Names: ychJ, STM14_2121
UniProt
Find proteins for Q8ZP43 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore Q8ZP43  Go to UniProtKB:  Q8ZP43

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
UPF0225 protein YchJ -C	C	32	Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S	Mutation(s): 0  Gene Names: ychJ, STM14_2121
UniProt
Find proteins for A0A0F6B249 (Salmonella typhimurium (strain 14028s / SGSC 2262)) Explore A0A0F6B249  Go to UniProtKB:  A0A0F6B249

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.271 (Depositor), 0.272 (DCC) 
• R-Value Work:  0.229 (Depositor), 0.231 (DCC) 
• R-Value Observed: 0.231 (Depositor) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.937	α = 90
b = 58.937	β = 90
c = 124.367	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-01-29 
Deposition Author(s): Yuan, X.L., Wang, W.W.

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Funding Organization	Location	Grant Number
Other government	China	--

Revision History  

• Version 1.0: 2025-01-29
  Type: Initial release