Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 141.03 kDa 
• Atom Count: 9626 
• Residue Count: 1228 
• Unique protein chains: 1

2W48

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

• DOI: 10.2210/pdb2W48/pdb

• Classification: TRANSCRIPTION
• Organism(s): Klebsiella pneumoniae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-11-21 Released: 2009-05-05 
• Deposition Author(s): de Sanctis, D., McVey, C.E., Enguita, F.J., Carrondo, M.A.

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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 

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

• PubMed: 19232357 
• DOI: 10.1016/j.jmb.2009.02.017
• Structures With Same Primary Citation


• 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 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.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
SORBITOL OPERON REGULATOR	A, B, C, D	315	Klebsiella pneumoniae	Mutation(s): 0  Gene Names: sorC
Find proteins for P37078 (Klebsiella pneumoniae) Explore P37078  Go to UniProtKB:  P37078

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MPD	A	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N
MRD	B	(4R)-2-METHYLPENTANE-2,4-DIOL C6 H14 O2 SVTBMSDMJJWYQN-RXMQYKEDSA-N
GOL	A, D	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL	A	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

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 = 91.67	α = 90
b = 113.33	β = 90
c = 184.15	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2008-11-21 
• Released Date: 2009-05-05 
Deposition Author(s): de Sanctis, D., McVey, C.E., Enguita, F.J., Carrondo, M.A.

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