4GCV

Structure of a Putative transcription factor (PA1374)from Pseudomonas aeruginosa

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.218 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

The X-ray crystal structure of PA1374 from Pseudomonas aeruginosa, a putative oxidative-stress sensing transcriptional regulator.

Kim, H., Choe, J.

(2013) Biochem Biophys Res Commun 431: 376-381

  • DOI: 10.1016/j.bbrc.2013.01.044
  • Primary Citation of Related Structures:  
    4GCV

  • PubMed Abstract: 

    • Members of the multiple antibiotic resistance regulator (MarR) family regulate the expression of genes related to antibiotic resistance, oxidative stress, and virulence in bacteria and Archaea. Here, we determined the structure of PA1374 from Pseudomonas aeruginosa at 2 ...

    Members of the multiple antibiotic resistance regulator (MarR) family regulate the expression of genes related to antibiotic resistance, oxidative stress, and virulence in bacteria and Archaea. Here, we determined the structure of PA1374 from Pseudomonas aeruginosa at 2.3Å resolution. PA1374 belonged to the MarR family and its structure revealed a tightly bound dimer with each subunit containing a winged helix-turn-helix (wHTH) DNA-binding motif. Conserved arginine residues, Arg55, Arg74, and Arg77, were located in the wHTH region, which might be important to DNA binding. Furthermore, each monomer contained a pocket made of conserved hydrophobic residues. A highly conserved Cys11 located at one end of this pocket may undergo oxidation by organic hydroperoxide molecules, as shown in other MarR family proteins acting as redox-sensing regulators. These results provide insights about the role of PA1374 as a putative oxidative-stress sensing transcriptional regulator.

    Organizational Affiliation: 

    Department of Life Science, University of Seoul, Seoul 130-743, Republic of Korea.



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Putative transcription protein
A, B, C, D, E, F, G, H, I, J, K, L
A, B, C, D, E, F, G, H, I, J, K, L
168Pseudomonas aeruginosa PAO1Mutation(s): 2 
Gene Names: PA1374
UniProt
Find proteins for Q9I3X0 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore Q9I3X0 
Go to UniProtKB:  Q9I3X0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9I3X0
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4
Download Ideal Coordinates CCD File 
JA [auth K],
P [auth B],
V [auth D],
Z [auth F]		PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K		 Ligand Interaction
GOL
Query on GOL
Download Ideal Coordinates CCD File 
BA [auth G],
DA [auth H],
FA [auth I],
HA [auth J],
KA [auth K],
BA [auth G],
DA [auth H],
FA [auth I],
HA [auth J],
KA [auth K],
MA [auth L],
N [auth A],
Q [auth B],
R [auth B],
S [auth B],
T [auth C],
W [auth D]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N		 Ligand Interaction
NA
Query on NA
Download Ideal Coordinates CCD File 
AA [auth G],
CA [auth H],
EA [auth I],
GA [auth J],
IA [auth K],
AA [auth G],
CA [auth H],
EA [auth I],
GA [auth J],
IA [auth K],
LA [auth L],
M [auth A],
O [auth B],
U [auth D],
X [auth E],
Y [auth F]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N		 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D, E, F, G, H, I, J, K, L
A, B, C, D, E, F, G, H, I, J, K, L
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.214 
  • R-Value Observed: 0.218 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 128.897α = 90
b = 74.448β = 90.03
c = 230.492γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
SOLVEphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-07-24
    Type: Initial release
  • Version 1.1: 2013-07-31
    Changes: Data collection