1F4K

CRYSTAL STRUCTURE OF THE REPLICATION TERMINATOR PROTEIN/B-SITE DNA COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.228 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of the RTP-DNA complex and the mechanism of polar replication fork arrest

Wilce, J.A.Vivian, J.P.Hastings, A.F.Otting, G.Folmer, R.H.Duggin, I.G.Wake, R.G.Wilce, M.C.

(2001) Nat.Struct.Mol.Biol. 8: 206-210

  • DOI: 10.1038/84934

  • PubMed Abstract: 
  • The coordinated termination of DNA replication is an important step in the life cycle of bacteria with circular chromosomes, but has only been defined at a molecular level in two systems to date. Here we report the structure of an engineered replicat ...

    The coordinated termination of DNA replication is an important step in the life cycle of bacteria with circular chromosomes, but has only been defined at a molecular level in two systems to date. Here we report the structure of an engineered replication terminator protein (RTP) of Bacillus subtilis in complex with a 21 base pair DNA by X-ray crystallography at 2.5 A resolution. We also use NMR spectroscopic titration techniques. This work reveals a novel DNA interaction involving a dimeric 'winged helix' domain protein that differs from predictions. While the two recognition helices of RTP are in close contact with the B-form DNA major grooves, the 'wings' and N-termini of RTP do not form intimate contacts with the DNA. This structure provides insight into the molecular basis of polar replication fork arrest based on a model of cooperative binding and differential binding affinities of RTP to the two adjacent binding sites in the complete terminator.


    Organizational Affiliation

    Department of Chemistry/Biochemistry University of Western Australia and the Western Australian Institute for Medical Research, Nedlands, Western Australia 6907 Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
REPLICATION TERMINATION PROTEIN
A, B
122Bacillus subtilis (strain 168)Gene Names: rtp
Find proteins for P0CI76 (Bacillus subtilis (strain 168))
Go to UniProtKB:  P0CI76
Entity ID: 1
MoleculeChainsLengthOrganism
5'-D(*CP*TP*AP*TP*GP*AP*AP*CP*AP*TP*AP*AP*TP*GP*TP*TP*CP*AP*TP*AP*G)-3'D21N/A
Entity ID: 2
MoleculeChainsLengthOrganism
5'-D(*CP*TP*AP*TP*GP*AP*AP*CP*AP*TP*TP*AP*TP*GP*TP*TP*CP*AP*TP*AP*G)-3'E21N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.276 
  • R-Value Work: 0.228 
  • Space Group: P 32 2 1
Unit Cell:
Length (Å)Angle (°)
a = 44.780α = 90.00
b = 44.780β = 90.00
c = 395.580γ = 120.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
DENZOdata reduction
CNSrefinement
AMoREphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2001-06-08
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance