3MQ0

Crystal Structure of Agobacterium tumefaciens repressor BlcR

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 

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


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

  • 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 ...

    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.

    Organizational Affiliation: 

    Indiana University, Bloomington, Indiana 47405, USA.



Macromolecules
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(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Transcriptional repressor of the blcABC operon A, B275Agrobacterium tumefaciensMutation(s): 0 
Gene Names: AGR_pAT_196, attJ, Atu5136, blcR
Find proteins for Q8VPD8 (Rhizobium radiobacter)
Explore Q8VPD8 
Go to UniProtKB:  Q8VPD8
Protein Feature View
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  • Reference Sequence
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 = 51.155α = 90
b = 74.773β = 90
c = 141.808γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
PHENIXmodel building
PHENIXrefinement
HKL-2000data reduction
SCALEPACKdata scaling
PHENIXphasing

Structure Validation

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Entry History 

Deposition Data

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

Revision History  (Full details and data files)

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