281D

CRYSTAL STRUCTURE OF THE A-DNA OCTAMER D(GGCATGCC)

  • Classification: DNA
  • Mutation(s): No 

  • Deposited: 1996-08-23 Released: 1996-09-16 
  • Deposition Author(s): Nunn, C.M., Neidle, S.

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Work: 0.171 
  • R-Value Observed: 0.171 

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This is version 1.3 of the entry. See complete history. 


Literature

Structure of the A-DNA octamer d(GGCATGCC).

Nunn, C.M., Neidle, S.

(1997) Acta Crystallogr D Biol Crystallogr 53: 269-273

  • DOI: https://doi.org/10.1107/S0907444996014795
  • Primary Citation of Related Structures:  
    281D

  • PubMed Abstract: 

    The crystal structure of the self-complementary DNA octamer d(GGCATGCC) has been determined to a resolution of 2.38 A and R factor of 17.1%. The structure is an A-DNA octamer duplex with Watson-Crick base pairing along its length. This sequence extends the investigation of octamer duplexes of the type d(GGX(4)CC) which assume P6(1) packing within the crystallographic unit cell. The A-DNA duplex is non-linear with a helix axis curvature of 7 degrees and bending towards the DNA minor groove. In view of the biological importance of protein recognition of some A-DNA sequences the minor-groove geometry and helix-axis curvature for this structure is compared with all others of the type d(GGXATXCC).

    • Organizational Affiliation: 

    The CRC Biomolecular Structure Unit, The Institute of Cancer Research, Sutton, Surrey, England. c.nunn@icr.ac.uk


Macromolecules

Find similar nucleic acids by:  Sequence   |   3D Structure  

Entity ID: 1
MoleculeChains LengthOrganismImage
DNA (5'-D(*GP*GP*CP*AP*TP*GP*CP*C)-3')
A, B
8N/A
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.38 Å
  • R-Value Work: 0.171 
  • R-Value Observed: 0.171 
  • Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.291α = 90
b = 46.291β = 90
c = 42.967γ = 120
Software Package:
Software NamePurpose
X-PLORrefinement
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1996-09-16
    Type: Initial release
  • Version 1.1: 2008-05-22
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-02-14
    Changes: Data collection, Database references