351D

X-RAY CRYSTAL STRUCTURES OF THE HEXAMER DCACGCG: CRYSTALS GROWN IN THE PRESENCE OF RUTHENIUM (II) HEXAMMINE CHLORIDE

  • Classification: DNA
  • Mutation(s): No 

  • Deposited: 1997-08-30 Released: 1997-09-30 
  • Deposition Author(s): Karthe, P., Gautham, N.

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Observed: 0.193 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of d(CACGCG).d(CGCGTG) in crystals grown in the presence of ruthenium III hexammine chloride.

Karthe, P.Gautham, N.

(1998) Acta Crystallogr D Biol Crystallogr 54: 501-509

  • DOI: 10.1107/s0907444997013954
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Hexammine ions are strong inducers of the transition from the B-form to the left-handed Z-form in DNA. Here the structure of d(CACGCG). d(CGCGTG) obtained from crystals grown from a drop containing [Ru(NH3)6]Cl3 is reported. The structure is clearly ...

    Hexammine ions are strong inducers of the transition from the B-form to the left-handed Z-form in DNA. Here the structure of d(CACGCG). d(CGCGTG) obtained from crystals grown from a drop containing [Ru(NH3)6]Cl3 is reported. The structure is clearly characterized as Z-DNA. When compared with the structure of d(CACGCG).d(CGCGTG)/MgCl2 and that of d(CGCGCG)2, subtle differences are seen, most noticeably in the water structure. Since stable well diffracting crystals grow easily in the presence of [Ru(NH3)6]Cl3 and since this ion is not visible in the electron density it is concluded that the ion plays a non-specific role in stabilizing Z-DNA.


    Organizational Affiliation

    Department of Crystallography and Biophysics, University of Madras, Guindy Campus, Chennai 600 025, India. crystal@giasmd01.vsnl.net.in



Macromolecules
  • Find similar nucleic acids by: Sequence   |   Structure
Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(*CP*AP*CP*GP*CP*G)-3')A6N/A
  • Find similar nucleic acids by: Sequence   |   Structure
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(*CP*GP*CP*GP*TP*G)-3')B6N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.64 Å
  • R-Value Observed: 0.193 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 17.88α = 90
b = 30.87β = 90
c = 44.83γ = 90
Software Package:
Software NamePurpose
NUCLSQrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-09-30
    Type: Initial release
  • Version 1.1: 2008-05-22
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance