2W48

Crystal structure of the Full-length Sorbitol Operon Regulator SorC from Klebsiella pneumoniae

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.219 

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


Literature

Crystal Structure of the Full-Length Sorbitol Operon Regulator Sorc from Klebsiella Pneumoniae: Structural Evidence for a Novel Transcriptional Regulation Mechanism.

De Sanctis, D., Mcvey, C.E., Enguita, F.J., Carrondo, M.A.

(2009) J Mol Biol 387: 759

  • DOI: 10.1016/j.jmb.2009.02.017
  • Primary Citation of Related Structures:  
    2W48

  • PubMed Abstract: 

    • SorC transcriptional regulators are common regulators in prokaryotes. Here we report the first crystal structure of a full-length SorC, the sorbitol operon regulator SorC from Klebsiella pneumoniae, the prototype of its family. SorC was found to be a ...

    SorC transcriptional regulators are common regulators in prokaryotes. Here we report the first crystal structure of a full-length SorC, the sorbitol operon regulator SorC from Klebsiella pneumoniae, the prototype of its family. SorC was found to be a homotetramer (which seems to be the biologically active form) that is able to recognize its DNA operator. The tetramer can be regarded as a dimer of dimers, with each dimer being composed of two identical subunits in different conformations. The DNA-binding domains divergently protrude from the core of the tetramer, suggesting that SorC may bind its operator in two distinct regions. The sugar-binding domain presents the same fold identified in members of the SorC family that shows some features identified as specific for sugar recognition. An in silico analysis shows that the localization of the putative sugar-binding site is close to the dimeric interfaces. This supports the proposal of a new mechanism of transcriptional regulation that is in complete agreement with functional studies recently reported on a protein belonging to the same family.

    Organizational Affiliation: 

    Macromolecular Crystallography, European Synchrotron Radiation Facility, Grenoble Cedex, France.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
SORBITOL OPERON REGULATORA, B, C, D315Klebsiella pneumoniaeMutation(s): 0 
Gene Names: sorC
Find proteins for P37078 (Klebsiella pneumoniae)
Explore P37078 
Go to UniProtKB:  P37078
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MPD
Query on MPD
Download Ideal Coordinates CCD File 
A
(4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N		 Ligand Interaction
MRD
Query on MRD
Download Ideal Coordinates CCD File 
B
(4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N		 Ligand Interaction
GOL
Query on GOL
Download Ideal Coordinates CCD File 
A, D
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N		 Ligand Interaction
CL
Query on CL
Download Ideal Coordinates CCD File 
A
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.218 
  • R-Value Observed: 0.219 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 91.67α = 90
b = 113.33β = 90
c = 184.15γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2009-05-05
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance