1N1C

Crystal Structure Of The Dimeric TorD Chaperone From Shewanella Massilia

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.224 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


Literature

A Novel Protein Fold and Extreme Domain Swapping in the Dimeric TorD Chaperone from Shewanella massilia

Tranier, S., Iobbi-Nivol, C., Birck, C., Ilbert, M., Mortier-Barriere, I., Mejean, V., Samama, J.P.

(2003) Structure 11: 165-174

  • DOI: 10.1016/s0969-2126(03)00008-x
  • Primary Citation of Related Structures:  
    1N1C

  • PubMed Abstract: 

    • TorD is the cytoplasmic chaperone involved in the maturation of the molybdoenzyme TorA prior to the translocation of the folded protein into the periplasm. The X-ray structure at 2.4 A resolution of the TorD dimer reveals extreme domain swapping between the two subunits ...

    TorD is the cytoplasmic chaperone involved in the maturation of the molybdoenzyme TorA prior to the translocation of the folded protein into the periplasm. The X-ray structure at 2.4 A resolution of the TorD dimer reveals extreme domain swapping between the two subunits. The all-helical architecture of the globular domains within the intertwined molecular dimer shows no similarity with known protein structures. According to sequence similarities, this new fold probably represents the architecture of the chaperones associated with the bacterial DMSO/TMAO reductases and also that of proteins of yet unknown functions. The occurrence of multiple oligomeric forms and the chaperone activity of both monomeric and dimeric TorD raise questions about the possible biological role of domain swapping in this protein.

    Related Citations: 
    • Characterization And Multiple Molecular Forms Of TorD From Shewanella Massilia, The Putative Chaperone Of The Molybdoenzyme TorA
      Tranier, S., Mortier-Barriere, I., Ilbert, M., Birck, C., Iobbi-Nivol, C., Mejean, V., Samama, J.-P.
      (2002) Protein Sci 11: 2148
    • TorD, a cytoplasmic chaperone that interacts with the unfolded trimethylamine N-oxide reductase enzyme (TorA) in Escherichia coli
      Pommier, J., Mejean, V., Giordano, G., Iobbi-Nivol, C.
      (1998) J Biol Chem 273: 16615
    Organizational Affiliation: 

    Groupe de Cristallographie Biologique, Institut de Pharmacologie et Biologie Structurale, 205 route de Narbonne, 31077, Toulouse Cedex, France.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TorA specific chaperoneA, B217Shewanella massiliaMutation(s): 6 
Gene Names: torD
UniProt
Find proteins for O87949 (Shewanella massilia)
Explore O87949 
Go to UniProtKB:  O87949
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO87949
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DTT
Query on DTT
Download Ideal Coordinates CCD File 
C [auth A],
D [auth B]		2,3-DIHYDROXY-1,4-DITHIOBUTANE
C4 H10 O2 S2
VHJLVAABSRFDPM-IMJSIDKUSA-N		 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE		A, B L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.224 
  • R-Value Observed: 0.224 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.958α = 90
b = 93.441β = 90
c = 95.136γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
SOLVEphasing
CNSrefinement
CCP4data scaling

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-05-13
    Type: Initial release
  • Version 1.1: 2008-04-28
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2021-11-10
    Changes: Data collection, Database references, Derived calculations