2OGG

Structure of B. subtilis trehalose repressor (TreR) effector binding domain

• PDB DOI: https://doi.org/10.2210/pdb2OGG/pdb

• Classification: TRANSCRIPTION
• Organism(s): Bacillus subtilis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2007-01-05 Released: 2007-02-06 
• Deposition Author(s): Rezacova, P., Krejcirikova, V., Borek, D., Moy, S.F., Joachimiak, A., Otwinowski, Z., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.247 
• R-Value Work: 0.190 
• R-Value Observed: 0.196 

Literature

The crystal structure of the effector-binding domain of the trehalose repressor TreR from Bacillus subtilis 168 reveals a unique quarternary assembly.

Rezacova, P., Krejcirikova, V., Borek, D., Moy, S.F., Joachimiak, A., Otwinowski, Z.

(2007) Proteins 69: 679-682

• PubMed: 17705272 
• DOI: https://doi.org/10.1002/prot.21516
• Primary Citation of Related Structures:  
  2OGG

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Organizational Affiliation: 

Department of Biochemistry, The University of Texas Southwestern Medical Center at Dallas, Dallas, TX 75390-8816, USA.

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,PQS (software)

Macromolecule Content

• Total Structure Weight: 18.54 kDa 
• Atom Count: 1,278 
• Modelled Residue Count: 144 
• Deposited Residue Count: 152 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Trehalose operon transcriptional repressor	A	152	Bacillus subtilis	Mutation(s): 1  Gene Names: treR
UniProt
Find proteins for P39796 (Bacillus subtilis (strain 168)) Explore P39796  Go to UniProtKB:  P39796

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	C [auth A], D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	E [auth A], F [auth A], G [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
NA	B [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

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: 2.50 Å
• R-Value Free: 0.247 
• R-Value Work: 0.190 
• R-Value Observed: 0.196 
• Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.719	α = 90
b = 69.719	β = 90
c = 236.535	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-3000	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-02-06 
Deposition Author(s): Rezacova, P., Krejcirikova, V., Borek, D., Moy, S.F., Joachimiak, A., Otwinowski, Z., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2007-02-06
  Type: Initial release
  
• Version 1.1: 2007-10-15
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Derived calculations, Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-10-09
  Changes: Structure summary