8JU9

Molecular mechanism of the one-component regulator RccR on bacterial metabolism and virulence

• PDB DOI: https://doi.org/10.2210/pdb8JU9/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Pseudomonas aeruginosa PAO1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-06-25 Released: 2024-01-17 
• Deposition Author(s): Rui, B., Yibo, Z.
• Funding Organization(s): National Science Foundation (NSF, China)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.200 
• R-Value Work: 0.175 
• R-Value Observed: 0.176 

Literature

Molecular mechanism of the one-component regulator RccR on bacterial metabolism and virulence

Rui, B., Yibo, Z.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 30.85 kDa 
• Atom Count: 2,250 
• Modelled Residue Count: 280 
• Deposited Residue Count: 280 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable transcriptional regulator	A	280	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Gene Names: PA5438
UniProt
Find proteins for Q9HTC8 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9HTC8  Go to UniProtKB:  Q9HTC8

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
KDP (Subject of Investigation/LOI)	B [auth A]	2-KETO-DEOXY-GALACTOSE C6 H11 O9 P OVPRPPOVAXRCED-NQXXGFSBSA-N
PG5	E [auth A]	1-METHOXY-2-[2-(2-METHOXY-ETHOXY]-ETHANE C8 H18 O4 YFNKIDBQEZZDLK-UHFFFAOYSA-N
PEG	C [auth A], D [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.200 
• R-Value Work: 0.175 
• R-Value Observed: 0.176 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.319	α = 90
b = 82.855	β = 90
c = 138.622	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-01-17 
Deposition Author(s): Rui, B., Yibo, Z.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, China)	China	81871615

Revision History  

• Version 1.0: 2024-01-17
  Type: Initial release