197D

ORTHORHOMBIC CRYSTAL STRUCTURE OF THE A-DNA OCTAMER D(GTACGTAC). COMPARISON WITH THE TETRAGONAL STRUCTURE


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.19 Å

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This is version 1.2 of the entry. See complete history

Literature

Orthorhombic crystal structure of the A-DNA octamer d(GTACGTAC). Comparison with the tetragonal structure.

Langlois d'Estaintot, B.Dautant, A.Courseille, C.Precigoux, G.

(1993) Eur.J.Biochem. 213: 673-682


  • PubMed Abstract: 
  • The X-ray crystal structure of the double-helical A-DNA octanucleotide d(GTACGTAC) has been solved by molecular replacement and refined to a resolution of 0.219 nm. The final R-factor is equal to 16.1% for 1516 observed reflections with F > 4 sigma(F ...

    The X-ray crystal structure of the double-helical A-DNA octanucleotide d(GTACGTAC) has been solved by molecular replacement and refined to a resolution of 0.219 nm. The final R-factor is equal to 16.1% for 1516 observed reflections with F > 4 sigma(F). The sequence crystallizes as an A-DNA-type double helix in the orthorhombic space group P2(1)2(1)2, with one duplex molecule solvated by 66 water molecules in the asymmetric unit. Cell parameters are a = 3.860 nm, b = 5.082 nm, c = 2.174 nm. It is the first time that such a crystal form has been observed. This orthorhombic structure has been compared with the tetragonal structure of the same oligonucleotide. It adopts a bent structure with an unusual packing between symmetry-related molecules.


    Related Citations: 
    • Crystal Structure Analysis of an A(DNA) Octamer d(GTACGTAC)
      Courseille, C.,Dautant, A.,Hospital, M.,Langlois D'Estaintot, B.,Precigoux, G.,Molko, D.,Teoule, R.
      (1990) Acta Crystallogr.,Sect.A 46: 9


    Organizational Affiliation

    Laboratoire de Cristallographie et de Physique Cristalline, Unité de Recherche Associée 144, Centre National de la Recherche Scientifique, Université de Bordeaux I, France.




Macromolecules

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Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(*GP*TP*AP*CP*GP*TP*AP*C)-3')A,B8N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.19 Å
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 38.605α = 90.00
b = 50.824β = 90.00
c = 21.740γ = 90.00
Software Package:
Software NamePurpose
NUCLSQrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1995-02-07
    Type: Initial release
  • Version 1.1: 2008-05-22
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance