2R5F | pdb_00002r5f

Putative sugar-binding domain of transcriptional regulator DeoR from Pseudomonas syringae pv. tomato

• PDB DOI: https://doi.org/10.2210/pdb2R5F/pdb

• Classification: TRANSCRIPTION
• Organism(s): Pseudomonas syringae pv. tomato str. DC3000
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-09-03 Released: 2007-09-18 
• Deposition Author(s): Cuff, M.E., Duggan, E., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.252 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.195 (Depositor), 0.213 (DCC) 
• R-Value Observed: 
  0.197 (Depositor) 

Literature

Putative sugar-binding domain of trancsriptional regulator DeoR from Pseudomonas syringae pv. tomato.

Cuff, M.E., Duggan, E., Clancy, S., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 29.11 kDa 
• Atom Count: 1,763 
• Modeled Residue Count: 218 
• Deposited Residue Count: 264 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator, putative	A	264	Pseudomonas syringae pv. tomato str. DC3000	Mutation(s): 0  Gene Names: DeoR, PSPTO_2395
UniProt
Find proteins for Q883G8 (Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)) Explore Q883G8  Go to UniProtKB:  Q883G8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.252 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.195 (Depositor), 0.213 (DCC) 
• R-Value Observed: 0.197 (Depositor) 

Space Group: P 4₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.112	α = 90
b = 42.112	β = 90
c = 144.782	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MLPHARE	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing
SHELXD	phasing
SHELXE	model building
SOLVE	phasing
RESOLVE	phasing
ARP/wARP	model building
CCP4	phasing
O	model building
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-09-18 
Deposition Author(s): Cuff, M.E., Duggan, E., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2007-09-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2024-11-20
  Changes: Data collection, Database references, Derived calculations, Structure summary