1JUC

Crystal Structure Analysis of a Holliday Junction Formed by CCGGTACCGG


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.226 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural characterization of a new crystal form of the four-way Holliday junction formed by the DNA sequence d(CCGGTACCGG)2: sequence versus lattice?

Thorpe, J.H.Teixeira, S.C.Gale, B.C.Cardin, C.J.

(2002) Acta Crystallogr.,Sect.D 58: 567-569


  • PubMed Abstract: 
  • DNA-strand exchange is a vital step in the recombination process, of which a key intermediate is the four-way DNA Holliday junction formed transiently in most living organisms. Here, the single-crystal structure at a resolution of 2.35 A of such a DN ...

    DNA-strand exchange is a vital step in the recombination process, of which a key intermediate is the four-way DNA Holliday junction formed transiently in most living organisms. Here, the single-crystal structure at a resolution of 2.35 A of such a DNA junction formed by d(CCGGTACCGG)(2), which has crystallized in a more highly symmetrical packing mode to that previously observed for the same sequence, is presented. In this case, the structure is isomorphous to the mismatch sequence d(CCGGGACCGG)(2), which reveals the roles of both lattice and DNA sequence in determining the junction geometry. The helices cross at the larger angle of 43.0 degrees (the previously observed angle for this sequence was 41.4 degrees) as a right-handed X. No metal cations were observed; the crystals were grown in the presence of only group I counter-cations.


    Organizational Affiliation

    The University of Reading, Chemistry Department, Whiteknights, Reading RG6 6AD, England.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
5'-D(*CP*CP*GP*GP*TP*AP*CP*CP*GP*G)-3'A,B10N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.35 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.226 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 64.871α = 90.00
b = 25.364β = 110.57
c = 37.373γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
XFITdata reduction
REFMACrefinement
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-02-22
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance