1M6R

Crystal structure of rGd(CGCGCG) forming hexamer Z-DNA duplex with 5'-(rG) overhang


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.54 Å
  • R-Value Free: 0.191 
  • R-Value Work: 0.162 

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This is version 1.3 of the entry. See complete history

Literature

Crystal structure of rGd(CGCGCG): a Z-DNA hexamer duplex with a 5'-(rG) overhang.

Pan, B.Sundaralingam, M.

(2003) Acta Crystallogr.,Sect.D 59: 433-437


  • PubMed Abstract: 
  • The crystal structure of the heptamer rGd(CGCGCG) has been determined at 1.54 A resolution with R(work) and R(free) of 0.191 and 0.235, respectively. The crystal belongs to space group P2(1)2(1)2(1), with unit-cell parameters a = 17.96, b = 31.47, c ...

    The crystal structure of the heptamer rGd(CGCGCG) has been determined at 1.54 A resolution with R(work) and R(free) of 0.191 and 0.235, respectively. The crystal belongs to space group P2(1)2(1)2(1), with unit-cell parameters a = 17.96, b = 31.47, c = 44.73 A and two independent strands in the asymmetric unit. The chimera forms a Z-DNA hexamer duplex d(CGCGCG)(2), with the 5'-overhang rG invisible in the density. The replacement of rG in the 5' terminus of d(GCGCGCG) changes the reverse Hoogsteen G.G base pairing of the 5'-overhang dG (Pan et al., 1997). However, the replacement does not change the helix from Z-form to A-form or the water-structure motifs in the Z-DNA double-helical structure.


    Organizational Affiliation

    Departments of Chemistry and Biochemistry, 200 Johnston Laboratory, 176 West 19th Avenue, Columbus, Ohio 43210-1002, USA.




Macromolecules

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Entity ID: 1
MoleculeChainsLengthOrganism
5'-R(*G)D(*CP*GP*CP*GP*CP*G)-3'A,B7N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.54 Å
  • R-Value Free: 0.191 
  • R-Value Work: 0.162 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 17.960α = 90.00
b = 31.470β = 90.00
c = 44.730γ = 90.00
Software Package:
Software NamePurpose
CNSrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-02-25
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-11
    Type: Refinement description