1ZVV

Crystal structure of a ccpa-crh-dna complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.98 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.235 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Phosphoprotein Crh-Ser46-P displays altered binding to CcpA to effect carbon catabolite regulation.

Schumacher, M.A.Seidel, G.Hillen, W.Brennan, R.G.

(2006) J Biol Chem 281: 6793-6800

  • DOI: 10.1074/jbc.M509977200
  • Primary Citation of Related Structures:  
    1ZVV

  • PubMed Abstract: 
  • In Gram-positive bacteria, the catabolite control protein A (CcpA) functions as the master transcriptional regulator of carbon catabolite repression/regulation (CCR). To effect CCR, CcpA binds a phosphoprotein, either HPr-Ser46-P or Crh-Ser46-P. Although Crh and histidine-containing protein (HPr) are structurally homologous, CcpA binds Crh-Ser46-P more weakly than HPr-Ser46-P ...

    In Gram-positive bacteria, the catabolite control protein A (CcpA) functions as the master transcriptional regulator of carbon catabolite repression/regulation (CCR). To effect CCR, CcpA binds a phosphoprotein, either HPr-Ser46-P or Crh-Ser46-P. Although Crh and histidine-containing protein (HPr) are structurally homologous, CcpA binds Crh-Ser46-P more weakly than HPr-Ser46-P. Moreover, Crh can form domain-swapped dimers, which have been hypothesized to be functionally relevant in CCR. To understand the molecular mechanism of Crh-Ser46-P regulation of CCR, we determined the structure of a CcpA-(Crh-Ser46-P)-DNA complex. The structure reveals that Crh-Ser46-P does not bind CcpA as a dimer but rather interacts with CcpA as a monomer in a manner similar to that of HPr-Ser46-P. The reduced affinity of Crh-Ser46-P for CcpA as compared with that of HPr-Ser46 P is explained by weaker Crh-Ser46-P interactions in its contact region I to CcpA, which causes this region to shift away from CcpA. Nonetheless, the interface between CcpA and helix alpha 2 of the second contact region (contact region II) of Crh-Ser46-P is maintained. This latter finding demonstrates that this contact region is necessary and sufficient to throw the allosteric switch to activate cre binding by CcpA.


    Organizational Affiliation

    Department of Biochemistry & Molecular Biology, University of Texas M.D. Anderson Cancer Center, Houston, Texas 77030, USA.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Glucose-resistance amylase regulatorD [auth A], F [auth B], H [auth G]332Bacillus subtilisMutation(s): 0 
Gene Names: ccpA
UniProt
Find proteins for P25144 (Bacillus subtilis (strain 168))
Explore P25144 
Go to UniProtKB:  P25144
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
HPr-like protein crhI [auth J], G [auth P], E [auth W]85Bacillus subtilisMutation(s): 0 
Gene Names: crh
UniProt
Find proteins for O06976 (Bacillus subtilis (strain 168))
Explore O06976 
Go to UniProtKB:  O06976
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    DNA recognition strand CREA [auth O], C [auth R], B [auth T]16N/A
    Protein Feature View
    Expand
    • Reference Sequence
    Small Molecules
    Modified Residues  1 Unique
    IDChainsTypeFormula2D DiagramParent
    SEP
    Query on SEP
    E [auth W], G [auth P], I [auth J]L-PEPTIDE LINKINGC3 H8 N O6 PSER
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.98 Å
    • R-Value Free: 0.298 
    • R-Value Work: 0.235 
    • R-Value Observed: 0.235 
    • Space Group: C 1 2 1
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 83.69α = 90
    b = 158.1β = 100.73
    c = 125.47γ = 90
    Software Package:
    Software NamePurpose
    MOSFLMdata reduction
    SCALAdata scaling
    EPMRphasing
    CNSrefinement
    CCP4data scaling

    Structure Validation

    View Full Validation Report




    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2006-02-07
      Type: Initial release
    • Version 1.1: 2008-04-30
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance
    • Version 1.3: 2012-08-22
      Changes: Other
    • Version 1.4: 2017-01-11
      Changes: Other