1OSB

Conjugative Relaxase TrwC in complex with OriT Dna. Metal-free structure.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.195 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Recognition and processing of the origin of transfer DNA by conjugative relaxase TrwC.

Guasch, A.Lucas, M.Moncalian, G.Cabezas, M.Perez-Luque, R.Gomis-Ruth, F.X.de la Cruz, F.Coll, M.

(2003) Nat.Struct.Mol.Biol. 10: 1002-1010

  • DOI: 10.1038/nsb1017
  • Primary Citation of Related Structures:  
  • Also Cited By: 2CDM

  • PubMed Abstract: 
  • Relaxases are DNA strand transferases that catalyze the initial and final stages of DNA processing during conjugative cell-to-cell DNA transfer. Upon binding to the origin of transfer (oriT) DNA, relaxase TrwC melts the double helix. The three-dimens ...

    Relaxases are DNA strand transferases that catalyze the initial and final stages of DNA processing during conjugative cell-to-cell DNA transfer. Upon binding to the origin of transfer (oriT) DNA, relaxase TrwC melts the double helix. The three-dimensional structure of the relaxase domain of TrwC in complex with its cognate DNA at oriT shows a fold built on a two-layer alpha/beta sandwich, with a deep narrow cleft that houses the active site. The DNA includes one arm of an extruded cruciform, an essential feature for specific recognition. This arm is firmly embraced by the protein through a beta-ribbon positioned in the DNA major groove and a loop occupying the minor groove. It is followed by a single-stranded DNA segment that enters the active site, after a sharp U-turn forming a hydrophobic cage that traps the N-terminal methionine. Structural analysis combined with site-directed mutagenesis defines the architecture of the active site.


    Related Citations: 
    • Two active-site tyrosyl residues of protein TrwC act sequentially at the origin of transfer during plasmid R388 conjugation
      Grandoso, G.,Avila, P.,Cayon, A.,Hernando, M.A.,Llosa, M.,de la Cruz, F.
      (2000) J.Mol.Biol. 295: 1163
    • Bacterial conjugation: a two-step mechanism for DNA transport.
      Llosa, M.,Gomis-Ruth, F.X.,Coll, M.,de la Cruz, F.
      (2002) Mol.Microbiol. 45: 1


    Organizational Affiliation

    Institut de Biologia Molecular de Barcelona, CSIC, Jordi Girona, 18-26, 08034 Barcelona, Spain.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
TrwC protein
A, C
293Escherichia coliMutation(s): 0 
Gene Names: trwC
Find proteins for Q47673 (Escherichia coli)
Go to UniProtKB:  Q47673
Entity ID: 1
MoleculeChainsLengthOrganism
Dna oligonucleotideB,D25N/A
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B, C, D
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.65 Å
  • R-Value Free: 0.241 
  • R-Value Work: 0.195 
  • Space Group: P 65
Unit Cell:
Length (Å)Angle (°)
a = 147.780α = 90.00
b = 147.780β = 90.00
c = 78.680γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
SCALAdata scaling
CCP4data scaling
MOSFLMdata reduction
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-11-25
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance