1RZR

crystal structure of transcriptional regulator-phosphoprotein-DNA complex

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.80 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.242 
  • R-Value Observed: 0.242 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Structural basis for allosteric control of the transcription regulator CcpA by the phosphoprotein HPr-Ser46-P.

Schumacher, M.A., Allen, G.S., Diel, M., Seidel, G., Hillen, W., Brennan, R.G.

(2004) Cell 118: 731-741

  • DOI: 10.1016/j.cell.2004.08.027
  • Primary Citation of Related Structures:  
    1SXI, 1SXH, 1SXG, 1RZR

  • PubMed Abstract: 

    • Carbon catabolite repression (CCR) is one of the most fundamental environmental-sensing mechanisms in bacteria and imparts competitive advantage by establishing priorities in carbon metabolism. In gram-positive bacteria, the master transcription regulator of CCR is CcpA ...

    Carbon catabolite repression (CCR) is one of the most fundamental environmental-sensing mechanisms in bacteria and imparts competitive advantage by establishing priorities in carbon metabolism. In gram-positive bacteria, the master transcription regulator of CCR is CcpA. CcpA is a LacI-GalR family member that employs, as an allosteric corepressor, the phosphoprotein HPr-Ser46-P, which is formed in glucose-replete conditions. Here we report structures of the Bacillus megaterium apoCcpA and a CcpA-(HPr-Ser46-P)-DNA complex. These structures reveal that HPr-Ser46-P mediates a novel two-component allosteric DNA binding activation mechanism that involves both rotation of the CcpA subdomains and relocation of pivot-point residue Thr61, which leads to juxtaposition of the DNA binding regions permitting "hinge" helix formation in the presence of cognate DNA. The structure of the CcpA-(HPr-Ser46-P)-cre complex also reveals the elegant mechanism by which CcpA family-specific interactions with HPr-Ser46-P residues Ser46-P and His15 partition the high-energy CCR and low-energy PTS pathways, the latter requiring HPr-His15-P.

    Organizational Affiliation: 

    Department of Biochemistry and Molecular Biology, Oregon Health & Science University, Portland 97239, USA.



Macromolecules

Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Glucose-resistance amylase regulator A, C, G332Priestia megateriumMutation(s): 10 
Gene Names: ccpA
Find proteins for P46828 (Bacillus megaterium)
Explore P46828 
Go to UniProtKB:  P46828
Protein Feature View
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  • Reference Sequence
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(by identity cutoff)  |  Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Glucose-resistance amylase regulator D332Priestia megateriumMutation(s): 9 
Gene Names: ccpA
Find proteins for P46828 (Bacillus megaterium)
Explore P46828 
Go to UniProtKB:  P46828
Protein Feature View
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  • Reference Sequence
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(by identity cutoff)  |  Structure
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Phosphocarrier protein HPr L, S, T, Y88Priestia megateriumMutation(s): 1 
Gene Names: ptsH
Find proteins for O69250 (Bacillus megaterium)
Explore O69250 
Go to UniProtKB:  O69250
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    5'-D(*CP*TP*GP*AP*AP*AP*GP*CP*GP*CP*TP*AP*AP*CP*AP*G)-3'E, H16N/A
    • Find similar nucleic acids by:  Sequence   |   Structure
      • Entity ID: 2
      MoleculeChainsLengthOrganismImage
      5'-D(*CP*TP*GP*TP*TP*AP*GP*CP*GP*CP*TP*TP*TP*CP*AP*G)-3'B, R16N/A
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.80 Å
      • R-Value Free: 0.288 
      • R-Value Work: 0.242 
      • R-Value Observed: 0.242 
      • Space Group: P 1 21 1
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 105.71α = 90
      b = 109.24β = 90.05
      c = 117.81γ = 90
      Software Package:
      Software NamePurpose
      CNSrefinement
      MOSFLMdata reduction
      CCP4data scaling
      CNSphasing

      Structure Validation

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      View more in-depth experimental data

      Entry History 

      Deposition Data

      Revision History  (Full details and data files)

      • Version 1.0: 2004-10-12
        Type: Initial release
      • Version 1.1: 2008-04-29
        Changes: Version format compliance
      • Version 1.2: 2011-07-13
        Changes: Version format compliance