Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 59.63 kDa 
• Atom Count: 4086 
• Modelled Residue Count: 491 
• Deposited Residue Count: 550 
• Unique protein chains: 1

3MQ0

Crystal Structure of Agobacterium tumefaciens repressor BlcR

• PDB DOI: 10.2210/pdb3MQ0/pdb

• Classification: Transcription repressor
• Organism(s): Agrobacterium tumefaciens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2010-04-27 Released: 2011-03-30 
• Deposition Author(s): Chen, L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 0.218 
• R-Value Work: 0.187 
• R-Value Observed: 0.188 

Literature

The Agrobacterium tumefaciens Transcription Factor BlcR Is Regulated via Oligomerization.

Pan, Y., Fiscus, V., Meng, W., Zheng, Z., Zhang, L.H., Fuqua, C., Chen, L.

(2011) J Biol Chem 286: 20431-20440

• PubMed: 21467043 
• DOI: 10.1074/jbc.M110.196154
• Primary Citation of Related Structures:  
  3MQ0


• PubMed Abstract: 
  

The Agrobacterium tumefaciens BlcR is a member of the emerging isocitrate lyase transcription regulators that negatively regulates metabolism of γ-butyrolactone, and its repressing function is relieved by succinate semialdehyde (SSA). Our crystal structure showed that BlcR folded into the DNA- and SSA-binding domains and dimerized via the DNA-binding domains. Mutational analysis identified residues, including Phe(147), that are important for SSA association; BlcR(F147A) existed as tetramer. Two BlcR dimers bound to target DNA and in a cooperative manner, and the distance between the two BlcR-binding sequences in DNA was critical for BlcR-DNA association. Tetrameric BlcR(F147A) retained DNA binding activity, and importantly, this activity was not affected by the distance separating the BlcR-binding sequences in DNA. SSA did not dissociate tetrameric BlcR(F147A) or BlcR(F147A)-DNA. As well as in the SSA-binding site, Phe(147) is located in a structurally flexible loop that may be involved in BlcR oligomerization. We propose that SSA regulates BlcR DNA-binding function via oligomerization.

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Organizational Affiliation: 

Indiana University, Bloomington, Indiana 47405, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional repressor of the blcABC operon	A, B	275	Agrobacterium tumefaciens	Mutation(s): 0  Gene Names: AGR_pAT_196, attJ, Atu5136, blcR
UniProt
Find proteins for Q8VPD8 (Rhizobium radiobacter) Explore Q8VPD8  Go to UniProtKB:  Q8VPD8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 0.218 
• R-Value Work: 0.187 
• R-Value Observed: 0.188 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.155	α = 90
b = 74.773	β = 90
c = 141.808	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-04-27 
• Released Date: 2011-03-30 
Deposition Author(s): Chen, L.

Revision History  

• Version 1.0: 2011-03-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance