6GDS

Holliday Junctions formed from Telomeric DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.286 
  • R-Value Work: 0.242 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Holliday Junctions Formed from Human Telomeric DNA.

Haider, S.Li, P.Khiali, S.Munnur, D.Ramanathan, A.Parkinson, G.N.

(2018) J. Am. Chem. Soc. 140: 15366-15374

  • DOI: 10.1021/jacs.8b08699
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Cells have evolved inherent mechanisms, like homologous recombination (HR), to repair damaged DNA. However, repairs at telomeres can lead to genomic instability, often associated with cancer. While most rapidly dividing cells employ telomerase, the o ...

    Cells have evolved inherent mechanisms, like homologous recombination (HR), to repair damaged DNA. However, repairs at telomeres can lead to genomic instability, often associated with cancer. While most rapidly dividing cells employ telomerase, the others maintain telomere length through HR-dependent alternative lengthening of telomeres (ALT) pathways. Here we describe the crystal structures of Holliday junction intermediates of the HR-dependent ALT mechanism. Using an extended human telomeric repeat, we also report the crystal structure of two Holliday junctions in close proximity, which associate together through strand exchange to form a hemicatenated double Holliday junction. Our combined structural results demonstrate that ACC nucleotides in the C-rich lagging strand (5'-CTAACCCTAA-3') at the telomere repeat sequence constitute a conserved structural feature that constrains crossover geometry and is a preferred site for Holliday junction formation in telomeres.


    Organizational Affiliation

    UCL School of Pharmacy , University College London , London WC1N 1AX , United Kingdom.,Computational Science and Engineering Division , Oak Ridge National Laboratory , Oak Ridge , Tennessee 37830 , United States.,Dunn School of Pathology , University of Oxford , Oxford OX1 3RE , United Kingdom.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
Telomeric DNA (5' CTAACCCTAA) 10merA,C10Homo sapiens
Entity ID: 2
MoleculeChainsLengthOrganism
Telomeric DNA (5'-TTAGGGTTAG)-3') 10merB,D10Homo sapiens
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.286 
  • R-Value Work: 0.242 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 23.334α = 99.27
b = 33.183β = 90.00
c = 41.303γ = 110.59
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
Aimlessdata scaling
REFMACrefinement
PHASERphasing
CrysalisProdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-11-07
    Type: Initial release
  • Version 1.1: 2018-11-21
    Type: Data collection, Database references