3E9J

Structure of the charge-transfer intermediate of the transmembrane redox catalyst DsbB


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.7 Å
  • R-Value Free: 0.379 
  • R-Value Work: 0.337 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Preparation and structure of the charge-transfer intermediate of the transmembrane redox catalyst DsbB.

Malojcic, G.Owen, R.L.Grimshaw, J.P.Glockshuber, R.

(2008) Febs Lett. 582: 3301-3307

  • DOI: 10.1016/j.febslet.2008.07.063

  • PubMed Abstract: 
  • Disulfide bond formation is a critical step in the folding of many secretory proteins. In bacteria, disulfide bonds are introduced by the periplasmic dithiol oxidase DsbA, which transfers its catalytic disulfide bond to folding polypeptides. Reduced ...

    Disulfide bond formation is a critical step in the folding of many secretory proteins. In bacteria, disulfide bonds are introduced by the periplasmic dithiol oxidase DsbA, which transfers its catalytic disulfide bond to folding polypeptides. Reduced DsbA is reoxidized by ubiquinone Q8, catalyzed by inner membrane quinone reductase DsbB. Here, we report the preparation of a kinetically stable ternary complex between wild-type DsbB, containing all essential cysteines, Q8 and DsbA covalently bound to DsbB. The crystal structure of this trapped DsbB reaction intermediate exhibits a charge-transfer interaction between Q8 and the Cys44 in the DsbB reaction center providing experimental evidence for the mechanism of de novo disulfide bond generation in DsbB.


    Organizational Affiliation

    ETH Zurich, Institute of Molecular Biology and Biophysics, CH-8093 Zurich, Switzerland. mgoran@ethz.ch




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Thiol/disulfide oxidoreductase DsbA
B, E
189Escherichia coli (strain K12)Mutation(s): 1 
Gene Names: dsbA (dsf, ppfA)
Membrane protein
mpstruc
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Oxidoreductases
Protein: 
DsbB-DsbA Periplasmic Oxidase Complex
Find proteins for P0AEG4 (Escherichia coli (strain K12))
Go to UniProtKB:  P0AEG4
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Thiol/disulfide oxidoreductase DsbB
C, F
182Escherichia coli (strain K12)Mutation(s): 2 
Gene Names: dsbB (roxB, ycgA)
Membrane protein
mpstruc
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Oxidoreductases
Protein: 
DsbB-DsbA Periplasmic Oxidase Complex
Find proteins for P0A6M2 (Escherichia coli (strain K12))
Go to UniProtKB:  P0A6M2
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
UQ1
Query on UQ1

Download SDF File 
Download CCD File 
C, F
UBIQUINONE-1
C14 H18 O4
SOECUQMRSRVZQQ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.7 Å
  • R-Value Free: 0.379 
  • R-Value Work: 0.337 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 66.305α = 90.00
b = 103.105β = 91.16
c = 125.826γ = 90.00
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
CLARAdata collection
REFMACrefinement
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-11-25
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance