1K2K

NMR MINIMIZED AVERAGE STRUCTURE OF d(CGTACG)2

  • Classification: DNA

  • Deposited: 2001-09-28 Released: 2002-04-10 
  • Deposition Author(s): Lam, S.L., Ip, L.N.

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Low temperature solution structures and base pair stacking of double helical d(CGTACG)(2).

Lam, S.L.Ip, L.N.

(2002) J.Biomol.Struct.Dyn. 19: 907-917

  • DOI: 10.1080/07391102.2002.10506793
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Solution structures and base pair stacking of a self- complementary DNA hexamer d(CGTACG)(2) have been studied at 5, 10 and 15 degrees C, respectively. The stacking interactions among the center base pair steps of the DNA duplex are found to improve ...

    Solution structures and base pair stacking of a self- complementary DNA hexamer d(CGTACG)(2) have been studied at 5, 10 and 15 degrees C, respectively. The stacking interactions among the center base pair steps of the DNA duplex are found to improve when the terminal base pairs became less stable due to end fraying. A new structural quantity, the stacking sum (Sigma(s)), is introduced to indicate small changes in the stacking overlaps between base pairs. The improvements in the stacking overlaps to maintain the double helical conformation are probably the cause for the observed temperature dependent structural changes in double helical DNA molecule. A detailed analysis of the helical parameters, backbone torsion angles, base orientations and sugar conformations of these structures has been performed.


    Organizational Affiliation

    Department of Chemistry, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong. lams@cuhk.edu.hk




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
5'-D(*CP*GP*TP*AP*CP*G)-3'A,B6N/A
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2001-09-28 
  • Released Date: 2002-04-10 
  • Deposition Author(s): Lam, S.L., Ip, L.N.

Revision History 

  • Version 1.0: 2002-04-10
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance