4U9M

Structure of the DNA duplex d(ATTAAT)2 with Hoogsteen hydrogen bonds

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.13 Å
  • R-Value Free: 0.200 
  • R-Value Work: 0.146 
  • R-Value Observed: 0.148 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history. 


Literature

Structure of the DNA Duplex d(ATTAAT)2 with Hoogsteen Hydrogen Bonds.

Acosta-Reyes, F.J., Alechaga, E., Subirana, J.A., Campos, J.L.

(2015) PLoS One 10: e0120241-e0120241

  • DOI: https://doi.org/10.1371/journal.pone.0120241
  • Primary Citation of Related Structures:  
    4U9M

  • PubMed Abstract: 

    The traditional Watson-Crick base pairs in DNA may occasionally adopt a Hoogsteen conformation, with a different organization of hydrogen bonds. Previous crystal structures have shown that the Hoogsteen conformation is favored in alternating AT sequences of DNA. Here we present new data for a different sequence, d(ATTAAT)2, which is also found in the Hoogsteen conformation. Thus we demonstrate that other all-AT sequences of DNA with a different sequence may be found in the Hoogsteen conformation. We conclude that any all-AT sequence might acquire this conformation under appropriate conditions. We also compare the detailed features of DNA in either the Hoogsteen or Watson-Crick conformations.

    • Organizational Affiliation: 

    Universitat Politècnica de Catalunya, Departament d'Enginyeria Química, Diagonal 647, E-08028, Barcelona, Spain.


Macromolecules

Find similar nucleic acids by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains LengthOrganismImage
DNA (5'-D(*AP*TP*TP*AP*AP*T)-3')
A, B, C, D, E
6synthetic construct
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.13 Å
  • R-Value Free: 0.200 
  • R-Value Work: 0.146 
  • R-Value Observed: 0.148 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 24.756α = 90
b = 42.898β = 90.04
c = 99.422γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Feder funds and the Ministerio de Ciencia e InovacionSpainBFU-2009-10380
Generalitat de CatalunyaSpainSRG2009-1208
CONACYTMexicoReg. 212993

Revision History  (Full details and data files)

  • Version 1.0: 2015-04-01
    Type: Initial release
  • Version 1.1: 2023-12-20
    Changes: Data collection, Database references, Refinement description