1VRS

Crystal structure of the disulfide-linked complex between the N-terminal and C-terminal domain of the electron transfer catalyst DsbD


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.224 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis and kinetics of inter- and intramolecular disulfide exchange in the redox catalyst DsbD

Rozhkova, A.Stirnimann, C.U.Frei, P.Grauschopf, U.Brunisholz, R.Gruetter, M.G.Capitani, G.Glockshuber, R.

(2004) Embo J. 23: 1709-1719

  • DOI: 10.1038/sj.emboj.7600178
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • DsbD from Escherichia coli catalyzes the transport of electrons from cytoplasmic thioredoxin to the periplasmic disulfide isomerase DsbC. DsbD contains two periplasmically oriented domains at the N- and C-terminus (nDsbD and cDsbD) that are connected ...

    DsbD from Escherichia coli catalyzes the transport of electrons from cytoplasmic thioredoxin to the periplasmic disulfide isomerase DsbC. DsbD contains two periplasmically oriented domains at the N- and C-terminus (nDsbD and cDsbD) that are connected by a central transmembrane (TM) domain. Each domain contains a pair of cysteines that are essential for catalysis. Here, we show that Cys109 and Cys461 form a transient interdomain disulfide bond between nDsbD and cDsbD in the reaction cycle of DsbD. We solved the crystal structure of this catalytic intermediate at 2.85 A resolution, which revealed large relative domain movements in DsbD as a consequence of a strong overlap between the surface areas of nDsbD that interact with DsbC and cDsbD. In addition, we have measured the kinetics of all functional and nonfunctional disulfide exchange reactions between redox-active, periplasmic proteins and protein domains from the oxidative DsbA/B and the reductive DsbC/D pathway. We show that both pathways are separated by large kinetic barriers for nonfunctional disulfide exchange between components from different pathways.


    Organizational Affiliation

    Institut für Molekularbiologie und Biophysik, Eidgenössische Technische Hochschule Hönggerberg, Zürich, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Thiol:disulfide interchange protein dsbD
A, B, C
143Escherichia coli (strain K12)Mutation(s): 1 
Gene Names: dsbD (cutA2, cycZ, dipZ)
EC: 1.8.1.8
Find proteins for P36655 (Escherichia coli (strain K12))
Go to UniProtKB:  P36655
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Thiol:disulfide interchange protein dsbD
D, E, F
134Escherichia coli (strain K12)Mutation(s): 1 
Gene Names: dsbD (cutA2, cycZ, dipZ)
EC: 1.8.1.8
Find proteins for P36655 (Escherichia coli (strain K12))
Go to UniProtKB:  P36655
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.224 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 188.460α = 90.00
b = 52.600β = 100.39
c = 107.920γ = 90.00
Software Package:
Software NamePurpose
DENZOdata reduction
AMoREphasing
SCALEPACKdata scaling
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-07-12
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Source and taxonomy, Version format compliance