1UXC

FRUCTOSE REPRESSOR DNA-BINDING DOMAIN, NMR, MINIMIZED STRUCTURE


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Three-dimensional structure of the DNA-binding domain of the fructose repressor from Escherichia coli by 1H and 15N NMR.

Penin, F.Geourjon, C.Montserret, R.Bockmann, A.Lesage, A.Yang, Y.S.Bonod-Bidaud, C.Cortay, J.C.Negre, D.Cozzone, A.J.Deleage, G.

(1997) J.Mol.Biol. 270: 496-510

  • DOI: 10.1006/jmbi.1997.1123
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • FruR is an Escherichia coli transcriptional regulator that belongs to the LacI DNA-binding protein family. By using 1H and 15N NMR spectroscopy, we have determined the three-dimensional solution structure of the FruR N-terminal DNA-binding domain con ...

    FruR is an Escherichia coli transcriptional regulator that belongs to the LacI DNA-binding protein family. By using 1H and 15N NMR spectroscopy, we have determined the three-dimensional solution structure of the FruR N-terminal DNA-binding domain consisting of 57 amino acid residues. A total of 809 NMR-derived distances and 54 dihedral angle constraints have been used for molecular modelling with the X-PLOR program. The resulting set of calculated structures presents an average root-mean-square deviation of 0.37 A at the main-chain level for the first 47 residues. This highly defined N-terminal part of the structure reveals a similar topology for the three alpha-helices when compared to the 3D structures of LacI and PurR counterparts. The most striking difference lies in the connection between helix II and helix III, in which three additional residues are present in FruR. This connecting segment is well structured and contains a type III turn. Apart from hydrophobic interactions of non-polar residues with the core of the domain, this connecting segment is stabilised by several hydrogen bonds and by the aromatic ring stacking between Tyr19 of helix II and Tyr28 of the turn. The region containing the putative "hinge helix" (helix IV), that has been described in PurR-DNA complex to make specific base contacts in the minor groove of DNA, is unfolded. Examination of hydrogen bonds highlights the importance of homologous residues that seem to be conserved for their ability to fulfill helix N and C-capping roles in the LacI repressor family.


    Related Citations: 
    • Overproduction, Purification and Structural Characterization of the Functional N-Terminal DNA-Binding Domain of the Fru Repressor from Escherichia Coli K-12
      Scarabel, M.,Penin, F.,Bonod-Bidaud, C.,Negre, D.,Cozzone, A.J.,Cortay, J.C.
      (1995) Gene 153: 9
    • Rapid Estimation of Relative Amide Proton Exchange Rates of 15 N-Labelled Proteins by a Straightforward Water Selective Noesy-Hsqc Experiment
      Bockmann, A.,Penin, F.,Guittet, E.
      (1996) FEBS Lett. 383: 191


    Organizational Affiliation

    Institut de Biologie et Chimie des Proteines, Centre National de la Recherche Scientifique, Lyon, France.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
FRUCTOSE REPRESSOR
A
65Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: cra (fruC, fruR, shl)
Find proteins for P0ACP1 (Escherichia coli (strain K12))
Go to UniProtKB:  P0ACP1
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-04-21
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Source and taxonomy, Version format compliance
  • Version 1.3: 2017-11-29
    Type: Derived calculations, Other